regulation_constitutive
1
//regulation/constitutive
BBa_J44001
1
BBa_J44001
Reverse RBS (RBS<sub>rev</sub>) -- corresponds to BBa_B0030
Todd Eckdahl
2006-08-01T11:00:00Z
2015-08-31T04:08:48Z
false
false
_61_71_
0
606
61
Released HQ 2013
In stock
true
Reverse version of RBS BBa_B0030
Repeats in oligos caused unusual products during cloning
Cloned from synthetic oligos
true
annotation1893199
1
Reverse RBS
range1893199
1
1
15
BBa_R0180
1
BBa_R0180
T7 RNAP promoter
Barry Canton
2005-09-25T11:00:00Z
2015-05-08T01:14:15Z
false
false
_11_6_
0
135
6
Not in stock
false
T7 promoter with an A->T mutation at the -16 position of the consensus sequence
false
BBa_M13101
1
BBa_M13101
M13K07 gene I promoter
Natalie Kuldell
2006-12-15T12:00:00Z
2015-05-08T01:13:55Z
false
false
_45_
0
314
1
Not in stock
false
This part is from the bacteriophage M13 genome, bp 3086-3132 in M13K07. It directs transcription of M13 gene VII (BBa_M13507, BBa_M13007). Its identity as a promoter was described in Gene (1980) 11:129-148 based on -10,-35 homology and fragment of genome able to bind RNAP.
none
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban.
false
BBa_J61109
1
BBa_J61109
Ribosome Binding Site Family Member
John Anderson
2007-04-23T11:00:00Z
2015-08-31T02:03:00Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_M13507
1
BBa_M13507
M13KO7 gene VII RBS
Natalie Kuldell
2006-12-14T12:00:00Z
2015-05-08T01:13:56Z
false
true
_45_
0
314
1
Not in stock
false
This RBS is part of the bacteriophage M13 genome, initiating translation of the gene VII message (BBa_M13007). The part aligns with base pairs 1092-1107 in M13K07 genome. It was identified as the RBS for gene VII message by Wezenbeek et al in Gene (1980) 11: 129-148
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban
false
BBa_K119000
1
LacZ promo
Constitutive weak promoter of lacZ
Miguel Angel Ramirez-Romero
2008-09-27T11:00:00Z
2015-05-08T01:09:38Z
false
false
_235_
0
3054
9
Not in stock
false
LacZ constitutive promoter, without including operators.
We needed two versions of it.
Lac operon from E. coli.
false
annotation1976843
1
LacZ promoter
range1976843
1
1
38
BBa_J61116
1
BBa_J61116
Ribosome Binding Site Family Member
John Anderson
2007-04-23T11:00:00Z
2015-08-31T02:03:00Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_J45992
1
p(osmY)
Full-length stationary phase osmY promoter
Stephen Payne
2006-07-10T11:00:00Z
2015-08-31T04:08:50Z
false
false
_84_
0
642
84
Not in stock
true
osmY's promoter is active in stationary phase and under high osmotic pressure conditions.
Truncated Forward Primer: 5'- GTT TCT TCG AAT TCG CGG CCG CTT CTA GGCT TAT GTT TTC GCT GAT ATC - 3'
Total Length: 49 bp
Annealing Length: 21 bp
GC Content: 38.1%
Melting Temperature: 49.5 degrees C
hairpin deltaG: -2.66 kcal/mol
self dimer deltaG: -99.97 kcal/mol
Full Forward Primer: 5'- GTT TCT TCG AAT TCG CGG CCG CTT CTA GCTG GCA CAG GAA CGT TAT C - 3'
Total Length: 47 bp
Annealing Length: 19 bp
GC Content: 52.6%
Melting Temperature: 53.4 degrees C
hairpin deltaG: -3.99 kcal/mol
self dimer deltaG: -98.3 kcal/mol
Reverse Primer: 5'-GTT TCT TCC TGC AGC GGC CGC TAC TAG TAT TGT TAA ATA TAG ATC ACA ATT TTG- 3'
Total Length: 54 bp
Annealing Length: 25 bp
GC Content: 20.0%
Melting Temperature: 46.4 degrees C
hairpin deltaG: -2.86 kcal/mol
self dimer deltaG: -99.44 kcal/mol
heterodimer deltaG with Forward Primer: -99.44 kcal/mol
heterodimer deltaG with Conserved Forward Primer: -99.97 kcal/mol
This part was PCRed out of E. coli's genome.
false
annotation1883646
1
-35
range1883646
1
164
169
annotation1883645
1
-10
range1883645
1
188
193
BBa_K1585110
1
BBa_K1585110
Anderson Promoter with lacI binding site
Tobias Schwanemann
2015-08-31T11:00:00Z
2015-09-01T02:09:56Z
false
false
_2002_
24474
24474
9
false
Promoters of the Anderson Promoter Collection with lacI binding site derived from [http://parts.igem.org/Part:BBa_R0010 R_0010] to make them [http://openwetware.org/wiki/IPTG IPTG] iducible.
We choosed lacI-binding-site of part BBa_R0010 because we assumed older parts would be more reliable.
The part is shipped in backbone [http://parts.igem.org/Part:BBa_J61002 J61002] because the functionality is directly visible by adding IPTG. RFP ([http://parts.igem.org/Part:BBa_E1010 E1010]) should get expressed then.
[[File:K15751xx design.png |600px]]
Assambly of [http://parts.igem.org/Part:BBa_J23106 J23106] and lacI-binding-site of [http://parts.igem.org/Part:BBa_R0010 R_0010]
The "lacI binding site" of Part [http://parts.igem.org/Part:BBa_R0010 R_0010] differs from lacO from Part [http://parts.igem.org/Part:BBa_J33207 BBa_J33207].
false
component2441699
1
BBa_J23110
component2441701
1
BBa_K1585999
annotation2441699
1
BBa_J23110
range2441699
1
1
35
annotation2441701
1
BBa_K1585999
range2441701
1
44
78
BBa_K1585102
1
BBa_K1585102
Anderson Promoter with lacI binding site
Tobias Schwanemann
2015-08-31T11:00:00Z
2015-09-01T02:03:57Z
false
false
_2002_
24474
24474
9
false
Promoters of the Anderson Promoter Collection with lacI binding site derived from [http://parts.igem.org/Part:BBa_R0010 R_0010] to make them [http://openwetware.org/wiki/IPTG IPTG] iducible.
We choosed lacI-binding-site of part BBa_R0010 because we assumed older parts would be more reliable.
The part is shipped in backbone [http://parts.igem.org/Part:BBa_J61002 J61002] because the functionality is directly visible by adding IPTG. RFP ([http://parts.igem.org/Part:BBa_E1010 E1010]) should get expressed then.
[[File:K15751xx design.png |600px]]
Assambly of [http://parts.igem.org/Part:BBa_J23102 J23102] and lacI-binding-site of [http://parts.igem.org/Part:BBa_R0010 R_0010]
The "lacI binding site" of Part [http://parts.igem.org/Part:BBa_R0010 R_0010] differs from lacO from Part [http://parts.igem.org/Part:BBa_J33207 BBa_J33207].
false
component2441419
1
BBa_K1585999
component2441417
1
BBa_J23102
annotation2441417
1
BBa_J23102
range2441417
1
1
35
annotation2441419
1
BBa_K1585999
range2441419
1
44
78
BBa_M13108
1
BBa_M13108
M13K07 gene VIII promoter
Natalie Kuldell
2006-12-15T12:00:00Z
2015-05-08T01:13:55Z
false
true
_45_
0
314
1
Not in stock
false
This part is from the bacteriophage M13 genome, bp 1155-1201 in M13K07. It directs transcription of M13 gene VIII (BBa_M13508, BBa_M13008). Its identity as a promoter was described in Gene (1980) 11:129-148 based on -10,-35 homology and fragment of genome able to bind RNAP.
none
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban.
false
BBa_I742156
1
BBa_I742156
crtZ native rbs
Chris French
2007-10-23T11:00:00Z
2015-08-31T04:08:03Z
false
false
_123_
0
837
163
Not in stock
false
Native ribosome binding site for crtZ (beta-carotene hydroxylase) from Pantoea ananatis (formerly Erwinia uredovora) DSMZ 30080 (ATCC 19321). Accession: D90087.
A virtual part to be added to the coding sequence blunt (without a scar).
Pantoea ananatis (formerly Erwinia uredovora) DSMZ 30080 (ATCC 19321). Accession: D90087.
false
BBa_K1895002
1
BBa_K1895002
dnaK Promoter
iGEM16_Newcastle
2016-09-05T11:00:00Z
2016-09-06T04:33:29Z
false
false
_2361_
29859
29859
9
false
This is the dnaK promoter
[TODO]
Uniprot
false
BBa_K137089
1
BBa_K137089
optimized (TA) repeat constitutive promoter with 21 bp between -10 and -35 elements
Allen Lin
2008-08-20T11:00:00Z
2015-05-08T01:10:10Z
false
false
_187_
0
3112
9
Not in stock
false
optimized (TA) repeat constitutive promoter with 21 bp between -10 and -35 elements
None
PCR
false
BBa_M13105
1
BBa_M13105
M13K07 gene V promoter
Natalie Kuldell
2006-12-15T12:00:00Z
2015-05-08T01:13:55Z
false
false
_45_
0
314
1
Not in stock
false
This part is from the bacteriophage M13 genome, bp 786-835 in M13K07. It directs transcription of M13 gene V (BBa_M13505, BBa_M13005). Its identity as a promoter was described in Gene (1980) 11:129-148 based on -10,-35 homology and fragment of genome able to bind RNAP.
none
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban.
false
BBa_J61126
1
BBa_J61126
Ribosome Binding Site Family Member
John Anderson
2007-04-24T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_K137088
1
BBa_K137088
optimized (TA) repeat constitutive promoter with 19 bp between -10 and -35 elements
Allen Lin
2008-08-20T11:00:00Z
2015-05-08T01:10:10Z
false
false
_187_
0
3112
9
Not in stock
false
optimized (TA) repeat constitutive promoter with 19 bp between -10 and -35 elements
None
PCR
false
BBa_Z0252
1
BBa_Z0252
T7 weak binding and processivity
T7.2
2005-04-04T11:00:00Z
2015-05-08T01:14:55Z
false
false
_10_
0
250
10
Not in stock
false
Promoter for T7 RNA polymerase
T7
false
annotation1476345
1
t -> a mutation from consensus
range1476345
1
21
21
annotation1476343
1
23bp conserved region
range1476343
1
6
28
annotation1476344
1
tga -> acg mutation from consensus
range1476344
1
10
12
BBa_R0085
1
BBa_R0085
T7 Consensus Promoter Sequence
Barry Canton
2005-02-21T12:00:00Z
2015-05-08T01:14:15Z
false
false
_11_6_
0
135
7
Released HQ 2013
In stock
false
The T7 promoter should only produce PoPS when the T7 polymerase is also being expressed.
Sequence obtained from Sri Kosuri
false
annotation1721520
1
Transcription Start Site
range1721520
1
18
18
annotation1721522
1
Initiation Region
range1721522
1
12
23
annotation1721521
1
Polymerase Binding Region
range1721521
1
1
11
BBa_J61100
1
BBa_J61100
Ribosome Binding Site Family Member
John Anderson
2007-01-28T12:00:00Z
2015-08-31T02:03:00Z
false
true
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
true
BBa_K143021
1
RBS-spoVG
SpoVG ribosome binding site (RBS) for B. subtilis
James Chappell
2008-09-16T11:00:00Z
2015-05-08T01:10:23Z
false
true
_199_
0
2090
9
Released HQ 2013
In stock
false
Description: SpoVG is an endogenous ribosome binding site from B.subtilis. The sequence of the spoVG ribosome binding site is AAAGGUGGUGA which is complementary to the sequence UUUCCUCCACU from the 3' region of the 16s rRNA from B.subtilis. Previous research showed that the predicted binding energy of the 16s rRNA to the RBS is -19kcal <cite>1</cite>
In order to ensure that the RBS is functional the actual ribosome binding site was maintained and the distance between the RBS and the start codon maintained. In order to conform to the biobrick standard the sequence flanking the RBS had to be changed but the distance between the promoter and RBS, and start codon and RBS was maintained.
The sequence was taken from a previous research paper [1] and was constructed by Geneart.
false
annotation1975997
1
rbs
range1975997
1
1
12
BBa_K1330002
1
BBa_K1330002
Constitutive promoter (J23105)
Kristian Jensen
2014-09-29T11:00:00Z
2015-05-08T01:09:55Z
false
false
_1705_
0
20126
9
In stock
false
t
t
t
false
BBa_B0070
1
BBa_B0070
Specialized RBS modified from that of B0036 (Brink et al.)
Barry Canton
2006-03-03T12:00:00Z
2015-08-31T04:07:21Z
false
false
_11_6_
0
135
6
Not in stock
false
This RBS has the modified Shine-Dalgarno sequence, it has a reduced secondary structure relative to using the actual Brink sequence with mixed connective sites flanking it. the spacing between the SD and the ATG is the same as that used by Brink et al. even though it is non-optimal for <I>E. coli</I>
false
BBa_J64968
1
creB RBS
RBS on creB
Kristopher Kuchenbecker
2007-03-19T12:00:00Z
2015-05-08T01:08:17Z
false
false
_98_
0
1429
98
Not in stock
false
Ribosome Binding Site
RBS
''E. coli'' K-12 genome
false
BBa_J61132
1
BBa_J61132
Ribosome Binding Site Family Member
John Anderson
2007-04-24T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_K122000
1
BBa_K122000
pPGK1
David Ouyang
2008-10-20T11:00:00Z
2015-05-08T01:09:42Z
false
false
_218_
0
3326
9
It's complicated
false
This is the 1500 bp upstream of the yeast PGK1 coding region. This is a putative constitutive promoter.
Source: Saccharomyces cerevisiae genomic DNA.
This part was obtained from yeast genomic DNA.
false
BBa_K119001
1
LacZ prom
Mutated LacZ promoter
Miguel Angel Ram??rez-Romero
2008-09-27T11:00:00Z
2015-05-08T01:09:38Z
false
false
_235_
0
3054
9
Not in stock
false
Constitutive weak promoter of lacZ which sequence was changed at position 29 (T->G) in order to make it weaker
We needed two version of it.
Lac Operon from E. coli.
false
annotation1977487
1
s_mutation
range1977487
1
29
29
annotation1976842
1
LacZ prom mut
range1976842
1
1
38
BBa_K137086
1
BBa_K137086
optimized (TA) repeat constitutive promoter with 15 bp between -10 and -35 elements
Allen Lin
2008-08-20T11:00:00Z
2015-05-08T01:10:10Z
false
false
_187_
0
3112
9
Not in stock
false
optimized (TA) repeat constitutive promoter with 15 bp between -10 and -35 elements
None
PCR
false
BBa_J61134
1
BBa_J61134
Ribosome Binding Site Family Member
John Anderson
2007-04-24T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_I742153
1
BBa_I742153
crtY native rbs
Chris French
2007-10-23T11:00:00Z
2015-08-31T04:08:03Z
false
false
_123_
0
837
163
Not in stock
false
Native ribosome binding site of crtY (lycopene cyclase) from Pantoea ananatis (formerly Erwinia uredovora) DSMZ 30080 (ATCC 19321). Accession: D90087.
This is a virtual part to be added, blunt-ended, to the coding sequence.
Pantoea ananatis (formerly Erwinia uredovora) DSMZ 30080 (ATCC 19321). Accession: D90087.
false
BBa_K1585113
1
BBa_K1585113
Anderson Promoter with lacI binding site
Tobias Schwanemann
2015-08-31T11:00:00Z
2015-09-01T02:09:36Z
false
false
_2002_
24474
24474
9
false
Promoters of the Anderson Promoter Collection with lacI binding site derived from [http://parts.igem.org/Part:BBa_R0010 R_0010] to make them [http://openwetware.org/wiki/IPTG IPTG] iducible.
We choosed lacI-binding-site of part BBa_R0010 because we assumed older parts would be more reliable.
The part is shipped in backbone [http://parts.igem.org/Part:BBa_J61002 J61002] because the functionality is directly visible by adding IPTG. RFP ([http://parts.igem.org/Part:BBa_E1010 E1010]) should get expressed then.
[[File:K15751xx design.png |600px]]
Assambly of [http://parts.igem.org/Part:BBa_J23110 J23110] and lacI-binding-site of [http://parts.igem.org/Part:BBa_R0010 R_0010]
The "lacI binding site" of Part [http://parts.igem.org/Part:BBa_R0010 R_0010] differs from lacO from Part [http://parts.igem.org/Part:BBa_J33207 BBa_J33207].
false
component2441702
1
BBa_J23113
component2441704
1
BBa_K1585999
annotation2441704
1
BBa_K1585999
range2441704
1
44
78
annotation2441702
1
BBa_J23113
range2441702
1
1
35
BBa_J61119
1
BBa_J61119
Ribosome Binding Site Family Member
John Anderson
2007-04-24T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_J23118
1
BBa_J23118
constitutive promoter family member
John Anderson
2006-08-16T11:00:00Z
2015-08-31T04:08:40Z
false
true
_52_
0
483
95
Released HQ 2013
In stock
true
Later
N/A
Later
true
BBa_J45504
1
BBa_J45504
htpG Heat Shock Promoter
Stephen Payne
2006-06-20T11:00:00Z
2015-08-31T04:08:49Z
false
false
_84_
0
642
84
Not in stock
false
This promoter is active at higher temperatures.
None.
Chris Voigt Lab at UCSF
false
BBa_K256033
1
BBa_K256033
Infrared signal reporter (J23119:IFP:J23119:HO1)
iGEM09_NTU-Singapore
2009-10-19T11:00:00Z
2015-05-08T01:11:41Z
false
false
_359_
0
4864
9
It's complicated
true
This part co-expresses IFP and HO1.
--
Gene sequence is obtained directly from Tsien's lab.
false
component2288200
1
BBa_K256018
component2288213
1
BBa_K256020
annotation2288213
1
BBa_K256020
range2288213
1
1176
2124
annotation2288200
1
BBa_K256018
range2288200
1
1
1167
BBa_K082001
1
BBa_K082001
RBS medium
Yanting Xue , Binjie Xu
2008-10-27T12:00:00Z
2015-05-08T01:08:35Z
false
false
_228_
0
1560
9
It's complicated
false
Weak1 RBS based on Ron Weiss thesis. Strength is considered relative to BBa_B0030, BBa_B0031, BBa_B0033.
the
the
false
annotation1993438
1
BBa_K082001
range1993438
1
1
15
BBa_J34814
1
BBa_J34814
T7 Promoter
Alexandra Choutko
2006-10-25T11:00:00Z
2015-08-31T04:08:47Z
false
false
_62_
0
1085
62
Not in stock
false
to be used qith t7 polymerase BBa_J34811
a
a
false
BBa_K1479004
1
nickname
Just for upload test
ChenYB
2014-09-30T11:00:00Z
2015-05-08T01:10:40Z
false
false
_1859_
0
21515
9
Not in stock
false
This part is just for upload test. It is meaningless
NULL
NULL
false
annotation2397969
1
modified thr terminator
range2397969
1
113
134
annotation2397962
1
stop
range2397962
1
34
34
annotation2397983
1
BBa_B0010
range2397983
1
303
382
annotation2397979
1
polya
range2397979
1
227
240
annotation2397986
1
BBa_B0012
range2397986
1
391
431
annotation2397956
1
misc
range2397956
1
1
20
annotation2397964
1
stem_loop
range2397964
1
62
84
annotation2397963
1
BBa_B0011
range2397963
1
50
95
annotation2397987
1
T7 TE
range2397987
1
398
417
annotation2397973
1
PolyA
range2397973
1
155
160
annotation2397988
1
polya
range2397988
1
418
431
annotation2397960
1
T7 TE
range2397960
1
8
27
annotation2397966
1
B1008
range2397966
1
104
143
annotation2397959
1
BBa_B0012
range2397959
1
1
41
annotation2397990
1
misc
range2397990
1
1
20
annotation2397989
1
stop
range2397989
1
424
424
annotation2397972
1
B1007
range2397972
1
152
191
annotation2397968
1
PolyA
range2397968
1
108
112
annotation2397967
1
BBa_B1008
range2397967
1
104
143
annotation2397978
1
T7 TE
range2397978
1
207
226
annotation2397977
1
BBa_B0014
range2397977
1
200
294
annotation2397961
1
polya
range2397961
1
28
41
annotation2397982
1
stem_loop
range2397982
1
261
283
annotation2397971
1
BBa_B1007
range2397971
1
152
191
annotation2397975
1
PolyA
range2397975
1
183
188
annotation2397985
1
stem_loop
range2397985
1
314
357
annotation2397984
1
BBa_B0015
range2397984
1
303
431
annotation2397965
1
BBa_K1479001
range2397965
1
104
431
annotation2397955
1
BBa_K1479002
range2397955
1
1
95
annotation2397980
1
stop
range2397980
1
233
233
annotation2397974
1
modified thr
range2397974
1
161
182
annotation2397970
1
PolyA
range2397970
1
135
139
annotation2397981
1
BBa_B0011
range2397981
1
249
294
annotation2397976
1
BBa_B0012
range2397976
1
200
240
annotation2397957
1
22
range2397957
1
1
10
BBa_J56015
1
BBa_J56015
lacIQ - promoter sequence
Matt Eames
2006-10-31T12:00:00Z
2015-08-31T03:22:59Z
false
false
_79_98_
0
1132
98
Not in stock
false
Promoter sequence for constituitive expression
None
Synthesized by DNA 2.0
false
BBa_I723014
1
BBa_I723014
Estimated RBS for DntA
Scott Ramsay
2007-10-24T11:00:00Z
2015-08-31T04:07:53Z
false
false
_126_
0
2140
9
Not in stock
false
This is the naturally-occurring RBS found in the regulatory region of the DntA gene.
'''''This does not physically exist as a basic part due to time constraints; it was cloned as part of composite part which incorporates all of the components necessary for expression of a reporter gene under the control of DntR'''''. For this reason, the ends of the supplied sequence may not accurately represent the boundaries of the functional unit.
Cloned from a historical plasmid based on pQF52 carrying genomic sequences from ''Burkholderia cepacia''.
false
annotation1954961
1
misc
range1954961
1
1
25
BBa_J23112
1
BBa_J23112
constitutive promoter family member
John Anderson
2006-08-16T11:00:00Z
2015-08-31T04:08:40Z
false
false
_52_
0
483
95
Released HQ 2013
In stock
true
Later
N/A
Later
true
BBa_K382022
1
BBa_K382022
pENTCUP2 plant specific promoter
Patrick Boyle
2010-10-25T11:00:00Z
2015-06-11T01:13:46Z
false
false
_488_
4206
7814
9
It's complicated
false
pENTCUP2 promoter for the constitutive expression of genes in plants.
Amplified from PCR from the pORE E3 plasmid.
Derived from the pORE vector series (see http://2010.igem.org/Team:Harvard).
false
BBa_K143013
1
P43
Promoter 43 a constitutive promoter for B. subtilis
James Chappell
2008-09-10T11:00:00Z
2015-05-08T01:10:23Z
false
false
_199_
0
2090
9
Not in stock
false
Promoter 43 is a constitutive promoter that constitutively expresses the P43 protein in ''B.subtilis''. This promoter has been shown to be recognized and active during the exponential and lag phases of growth. It has been hypothesized that the ability to recognize the promoter in exponential and lag phase of growth is due to the recognition of the promoter by both sigma factor 55 (the major sigma factor) and sigma factor 37 (the lag phase sigma factor) <cite>1</cite>. The P43 promoter has been previously used for constitutive expression of exogenous genes within ''B.subtilis'' vectors <cite>2</cite>. The context with which we used the promoter P43 is as a '''Polymerase Per Second''' (PoPS) generator.
The biobrick part was designed to include the binding sites for both the sigma factor A and B. In addition the biobrick standard was applied to the promoter P43 sequence.
The part was designed using the sequence from the ''B.subtilis'' genome and from previously published papers <cite>2</cite>. This sequence was then synthesised by Geneart.
false
annotation1975709
1
Sigma A -10
range1975709
1
47
52
annotation1975706
1
Sigma B -35
range1975706
1
14
22
annotation1975708
1
Sigma A -35
range1975708
1
24
29
annotation1975707
1
Sigma B -10
range1975707
1
38
47
BBa_K137091
1
BBa_K137091
optimized (A) repeat constitutive promoter with 18 bp between -10 and -35 elements
Allen Lin
2008-08-20T11:00:00Z
2015-05-08T01:10:10Z
false
false
_187_
0
3112
9
Not in stock
false
optimized (A) repeat constitutive promoter with 18 bp between -10 and -35 elements
None
PCR
false
BBa_J23110
1
BBa_J23110
constitutive promoter family member
John Anderson
2006-08-16T11:00:00Z
2015-08-31T04:08:40Z
false
true
_52_
0
483
95
In stock
true
Later
N/A
Later
true
BBa_K1585118
1
BBa_K1585118
Anderson Promoter with lacI binding site
Tobias Schwanemann
2015-08-31T11:00:00Z
2015-09-01T02:31:42Z
false
false
_2002_
24474
24474
9
false
Promoters of the Anderson Promoter Collection with lacI binding site derived from [http://parts.igem.org/Part:BBa_R0010 R_0010] to make them [http://openwetware.org/wiki/IPTG IPTG] iducible.
We choosed lacI-binding-site of part BBa_R0010 because we assumed older parts would be more reliable.
The part is shipped in backbone [http://parts.igem.org/Part:BBa_J61002 J61002] because the functionality is directly visible by adding IPTG. RFP ([http://parts.igem.org/Part:BBa_E1010 E1010]) should get expressed then.
[[File:K15751xx design.png |600px]]
Assambly of [http://parts.igem.org/Part:BBa_J23118 J23118] and lacI-binding-site of [http://parts.igem.org/Part:BBa_R0010 R_0010]
The "lacI binding site" of Part [http://parts.igem.org/Part:BBa_R0010 R_0010] differs from lacO from Part [http://parts.igem.org/Part:BBa_J33207 BBa_J33207].
false
component2441717
1
BBa_K1585999
component2441715
1
BBa_J23118
annotation2441717
1
BBa_K1585999
range2441717
1
44
78
annotation2441715
1
BBa_J23118
range2441715
1
1
35
BBa_M13511
1
BBa_M13511
M13K07 gene XI RBS
Natalie Kuldell
2006-12-14T12:00:00Z
2015-05-08T01:13:56Z
false
false
_45_
0
314
1
Not in stock
false
This RBS is part of the bacteriophage M13 genome, initiating translation of the gene XI message (BBa_M13011). The part aligns with base pairs 3900-3915 in M13K07 genome. It was NOT identified as the RBS for gene XI message by Wezenbeek et al in Gene (1980) 11: 129-148
none
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban
false
BBa_K777008
1
BBa_K777008
Tar receptor under the control of constitutive promoter J23114
Bianca Genenncher
2012-09-20T11:00:00Z
2015-05-08T01:13:16Z
false
false
_1029_
0
11946
9
It's complicated
false
[[Image:Table_K777001-K777008_new.png|thumb|240px|right|'''Fig. 1:''' Overview of BioBricks containing the ''Tar'' gene downstream of Anderson promoters. (Activity according to Berkeley 2006)]]
The transmembrane chemoreceptor Tar of <i>E. coli</i> mediates chemotaxis towards aspartate and exists as a functional homodimer.
Here we used a set of 8 constitutive [http://partsregistry.org/Part:BBa_J23114 Anderson promoters] from the 2006 Berkeley group to test how different levels of constitutive ''Tar'' expression affect the chemotaxis of ''E. coli''.
<br> <br> <br>
<br> <br> <br>
<br> <br> <br>
<br> <br> <br>
* Genomic sequence was amplified using the following primers.
** Primers PCR: Base pairs in caps represent the respective restriction sites followed by either prefix or suffix. Primers were provided by SIGMA.
*** Fwd: Tar for + prefix: 5?? actGAATTCgcggccgctTCTAGAtgattaaccgtatccgcgtagtc 3??
*** Rev: Tar rev + suffix: 5?? tcCTGCAGcggccgctACTAGTcaaaatgtttcccagtttggatc 3??
<br>
* One XbaI site was found at position 420. The restriction site was changed from TCTAGt to CCTAGt via QuikChange PCR.
** Primers QuikChange (QC): Primers were provided by SIGMA.
*** Fwd: TarQC for: 5?? ACTGATTGATTAcCTAGATTATGGCAATACTGGAG 3??
*** Rev: TarQC rev: 5?? TGCCATAATCTAGgTAATCAATCAGTTCAGTTAAC 3??<br>(the uncapitalized letter induces the mutation for removal of the XbaI site)
*The part was amplified from genomic DNA of ''E. coli'' str. K-12 substr. DH10B, complete genome (CP000948.1).
*J23114 information was taken from the partsregistry and physical DNA from the 2012 distribution kit.
false
component2189408
1
BBa_K777000
component2189404
1
BBa_J23114
annotation2189404
1
BBa_J23114
range2189404
1
1
35
annotation2189408
1
BBa_K777000
range2189408
1
42
1703
BBa_B0031
1
BBa_B0031
RBS.2 (weak) -- derivative of BBa_0030
Vinay S Mahajan, Voichita D. Marinescu, Brian Chow, Alexander D Wissner-Gross and Peter Carr IAP, 2003.
2003-01-31T12:00:00Z
2015-08-31T04:07:20Z
false
true
_41_44_48_46_1_
0
24
7
Released HQ 2013
In stock
false
Medium RBS based on Ron Weiss thesis. Strength considered relative to <bb_part>BBa_B0030</bb_part>, <bb_part>BBa_B0032</bb_part>, <bb_part>BBa_B0033</bb_part>.
<P> <P>Varies from -6 to +1 region from original sequence to accomodate BioBricks suffix ("RBS-1" in figure 4-14 of thesis). <p>No secondary structures are formed in the given RBS region. Users should check for secondary structures induced in the RBS by upstream and downstream elements in the +50 to -50 region, as such structures will greatly affect the strength of the RBS. <P>
Contact info for this part: <a href="mailto:(bchow@media.mit.edu)">Brian Cho</a>
true
annotation23316
1
conserved
range23316
1
7
10
BBa_B0030
1
BBa_B0030
RBS.1 (strong) -- modified from R. Weiss
Vinay S Mahajan, Voichita D. Marinescu, Brian Chow, Alexander D Wissner-Gross and Peter Carr IAP, 2003.
2003-01-31T12:00:00Z
2015-08-31T04:07:20Z
false
true
_44_46_
0
24
7
Released HQ 2013
In stock
false
Strong RBS based on Ron Weiss thesis. Strength is considered relative to <bb_part>BBa_B0031</bb_part>, <bb_part>BBa_B0032</bb_part>, <bb_part>BBa_B0033</bb_part>.
Varies from -6 to +1 region from original sequence to accomodate BioBricks suffix ("orig" in figure 4-14 of Ron Weiss thesis). <p>No secondary structures are formed in the given RBS region. Users should check for secondary structures induced in the RBS by upstream and downstream elements in the +50 to -50 region, as such structures will greatly affect the strength of the RBS.
Contact info <a href="mailto:(bchow@media.mit.edu)">Brian Chow</a>
true
annotation1702
1
RBS
range1702
1
8
12
annotation7025
1
BBa_B0030
range7025
1
1
15
annotation1701
1
RBS-1\Strong
range1701
1
1
15
BBa_J64907
1
creA RBS
creA RBS
Ryan Ritterson
2007-03-19T12:00:00Z
2015-05-08T01:08:17Z
false
false
_98_
0
1422
98
Not in stock
false
ribosome binding site for creA gene in the E Coli cre operon
natural sequence, no design.
E Coli strain K12
false
BBa_K777101
1
BBa_K777101
flhDC operon under the control of constitutive promoter J23100
Team Goettingen
2012-09-18T11:00:00Z
2015-05-08T01:13:16Z
false
false
_1029_
0
12106
9
In stock
false
The flhDC operon is the master regulator of motility and chemotaxis in E. coli. FlhDC forms heterotetramers and activates class II operons in concert with sigma factor 70. Among the gene products of class II operons are several components of the flagellum and the alternative sigma factor FliA which is essential for the transcription of class III genes.
Here we used a set of 8 constitutive promoters from the 2006 Berkeley group to test how different levels of constitutive ''flhDC'' expression affect motility in ''E. coli''.
*The PstI restriction site in the ''flhDC'' sequence was mutated to CTGCGG using the reverse primer.
*''flhDC'' was amplified from genomic DNA of ''E. coli'' DH10B via PCR using the following primers:
**Fwd: 5'-actgaattcgcggccgcttctagatgcatacctccgagttgctg-3'<br>
**Rev: 5'-tcctgcagcggccgctactagttactgcccgggatggcggttgacataagcCgcaggcaaagctgccaacag-3' <br>(the capitalized "C" induces the mutation for removal of the PstI site)
*The part was amplified from genomic DNA of ''E. coli'' str. K-12 substr. DH10B, complete genome (CP000948.1).
*J23100 information was from partsregistry and physical DNA from the 2012 distribution kit.
false
component2186537
1
BBa_K777100
component2186529
1
BBa_J23100
annotation2186537
1
BBa_K777100
range2186537
1
42
910
annotation2186529
1
BBa_J23100
range2186529
1
1
35
BBa_J23116
1
BBa_J23116
constitutive promoter family member
John Anderson
2006-08-16T11:00:00Z
2015-08-31T04:08:40Z
false
false
_52_
0
483
95
In stock
true
Later
N/A
Later
true
BBa_J64024
1
BBa_J64024
sipC RBS
Dan Widmaier
2008-01-16T12:00:00Z
2015-08-31T01:56:26Z
false
false
_98_
0
2407
98
Not in stock
false
This part is the natural RBS from the sipC protein in Salmonella Type III Secretion.
This part was not designed with biobrick standard assembly in mind. This RBS has not been explicitly measured for expression rate using fluorescence or B-Gal assay.
Salmonella LT2 Genomic DNA
false
annotation1959623
1
sipC RBS
range1959623
1
1
15
BBa_J61128
1
BBa_J61128
Ribosome Binding Site Family Member
John Anderson
2007-04-24T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_K823010
1
BBa_K823010
Anderson promoter J23113
Korinna Kraft
2012-09-07T11:00:00Z
2015-07-07T11:47:51Z
false
false
_1081_
4206
12081
9
Released HQ 2013
In stock
false
Anderson promoter J23113 without RFP in backbone vector pSB1C3 to easily fuse the promoter with other reporters e.g. the lux operon.
no considerations
Partsregistry
false
annotation2182535
1
-35 box
range2182535
1
1
6
annotation2182534
1
J23113
range2182534
1
1
35
annotation2182536
1
-10 box
range2182536
1
24
29
BBa_J64020
1
BBa_J64020
invI RBS
Dan Widmaier
2008-01-16T12:00:00Z
2015-08-31T01:56:26Z
false
false
_98_
0
2407
98
Not in stock
false
This part is the natural invI RBS from Salmonella Typhimurium LT2.
This part was not designed with consideration for biobrick standard assembly in mind. This RBS has not been explicitly tested for expression level in a fluorescence or B-Gal assay.
Salmonella Typhimurium LT2 Genomic DNA
false
annotation1959619
1
invI RBS
range1959619
1
1
20
BBa_B0038
1
BBa_B0038
RBS 1
Josh Michener
2005-12-20T12:00:00Z
2015-08-31T04:07:20Z
false
false
_11_
0
253
6
Not in stock
false
Modified version of B0031 from the Voigt Lab. Not currently available as an independent part (only in a tet inverter).
false
BBa_B2022
1
BBa_B2022
4B RBS from T7
Bartholomew Canton
2007-05-22T11:00:00Z
2015-08-31T04:07:21Z
false
false
_11_
0
135
84
Not in stock
false
to be added automatically later
to be added automatically later
to be added automatically later
false
BBa_R0183
1
BBa_R0183
T7 RNAP promoter
Barry Canton
2005-09-25T11:00:00Z
2015-05-08T01:14:15Z
false
false
_11_6_
0
135
6
Not in stock
false
T7 promoter with an A->C mutation at the -16 position of the consensus sequence
false
BBa_I11010
1
BBa_I11010
RBS
bu
2004-09-02T11:00:00Z
2015-08-31T04:07:30Z
false
false
_2_
0
102
7
Not in stock
false
ribosome binding site
false
annotation1147662
1
RBS
range1147662
1
1
6
BBa_K1468001
1
BBa_K1468001
pJ23104 + gene encoding AsRed2
Pedro Luis Dorado Morales
2014-10-02T11:00:00Z
2015-05-08T01:10:38Z
false
false
_1847_
0
11756
9
It's complicated
false
-
-
-
false
BBa_B2040
1
BBa_B2040
8 RBS from T7
Bartholomew Canton
2007-05-22T11:00:00Z
2015-08-31T04:07:21Z
false
false
_11_
0
135
84
Not in stock
false
to be added automatically later
to be added automatically later
to be added automatically later
false
BBa_K777107
1
BBa_K777107
flhDC operon under the control of constitutive promoter J23113
Team Goettingen
2012-09-18T11:00:00Z
2015-05-08T01:13:16Z
false
false
_1029_
0
12106
9
In stock
false
[[Image:Table_K777101-K777108_new.jpg|thumb|240px|right|'''Fig. 1:''' Overview of BioBricks containing the ''flhDC'' operon downstream of Anderson promoters. (Activity according to Berkeley 2006)]]
The ''flhDC'' operon is the master regulator of motility and chemotaxis in ''E. coli''. FlhDC forms heterotetramers and activates class II operons in concert with sigma factor 70. Among the gene products of class II operons are several components of the flagellum and the alternative sigma factor FliA which is essential for the transcription of class III genes.
<br>Here we used a set of 8 constitutive Anderson-promoters from the 2006 Berkeley group to test how different levels of constitutive ''flhDC'' expression affect the motility of ''E. coli''.
*The PstI restriction site in the ''flhDC'' sequence was mutated to CTGCGG using the reverse primer.
*''flhDC'' was amplified from genomic DNA of ''E. coli'' DH10B via PCR using the following primers:
**Fwd: 5'-actgaattcgcggccgcttctagatgcatacctccgagttgctg-3'
**Rev: 5'-tcctgcagcggccgctactagttactgcccgggatggcggttgacataagcCgcaggcaaagctgccaacag-3' <br>(the capitalized "C" induces the mutation for removal of the PstI site)
*The part was amplified from genomic DNA of ''E. coli'' str. K-12 substr. DH10B, complete genome (CP000948.1).
*J23113 information was taken from the partsregistry and physical DNA from the 2012 distribution kit.
false
component2187095
1
BBa_J23113
component2187103
1
BBa_K777100
annotation2187103
1
BBa_K777100
range2187103
1
42
910
annotation2187095
1
BBa_J23113
range2187095
1
1
35
BBa_K088007
1
BBa_K088007
GlnRS promoter
Yaguang Liu
2008-10-23T11:00:00Z
2015-05-08T01:08:37Z
false
false
_190_
0
3108
9
It's complicated
false
This part promotes the transcription of TyrRS(aminoacyl tRNA synthetase).
It is a weak promoter.
E.coli
We synthetized it according to the GeneBank.
false
BBa_J01006
1
KP3
Key Promoter absorbs 3
Golden Bear
2005-10-31T12:00:00Z
2015-08-31T04:08:11Z
false
false
_13_
0
395
13
Not in stock
false
Promoter for transcribing keys to act on locks based on Isaacs, Collins, et. al: <a href="http://www.nature.com/nbt/journal/v22/n7/full/nbt986.html;jsessionid=464FF968289CFEAE2031D9BC81CDF6EC">
"Engineered riboregulators enable post-transcriptional control of gene expression"</a>
KP3 absorbs three nucleotides from mixed site ("TACTAGAG"), so that the key has a 5 nucleotide spacer region (i.e. "TAGAG") between the transcription start site and the first nucleotide of the key.
We are still looking into what the optimal size for the spacer region is. See also KP2 (BBa_J01007), and Key1 (BBa_J01008), Key2 (BBa_J01009), Lock1 (BBa_J01010), and Lock2 (BBa_J01011).
false
BBa_J23100
1
BBa_J23100
constitutive promoter family member
John Anderson
2006-08-03T11:00:00Z
2015-08-31T04:08:40Z
false
true
_52_
0
483
95
Released HQ 2013
In stock
true
Replace later
N/A
Isolated from library of promoters
true
BBa_M31519
1
BBa_M31519
Modified promoter sequence of g3.
Han Zhu
2007-02-27T12:00:00Z
2015-05-08T01:14:00Z
false
false
_102_
0
1377
102
Not in stock
false
This is the promoter sequence of g3 which has been separated from g8. It also includes the restriction enzyme EcoRV in front.
This part used in conjunction with BBa_M131520 allows g8 and promoter of g3 to be separate from each other, therefore allowing free regulation of g3 with no consequences on g8.
GATATCaattcacctcgaaagcaagctgataaaccgatacaattaaaggctcct
false
annotation1919691
1
BmtI
range1919691
1
54
60
annotation1915216
1
promoter-g3
range1915216
1
7
54
annotation1915217
1
EcoRV
range1915217
1
1
6
BBa_K103015
1
BBa_K103015
consensus RBS
Michael Lower
2008-10-08T11:00:00Z
2015-05-08T01:08:47Z
false
false
_180_
0
2582
9
Not in stock
false
false
annotation1979577
1
strong RBS
range1979577
1
1
6
BBa_B2003
1
T7 0.5
T7 RBS 0.5
Heather Keller
2006-09-27T11:00:00Z
2015-08-31T04:07:21Z
false
false
_11_
0
571
10
Not in stock
false
This is the -20 to -1 region of T7 gp0.5, which contains the native RBS region for this gene. The physical instantiation of this part does not exist. This part is not compatible with Standard Biobricks assembly methods, as the scar created during assembly would interrupt the spacing between the RBS and the start codon of the CDS. Individuals wishing to use this RBS sequence in their assembles should refer to part B2103.
The -20 to -1 region was chosen to be representative of the RBS region of the T7 genes for the following reasons:
1) The Shine-Delgarno region is contained within this defined region for all T7 genes.
2) Current literature suggests that when bound to the Translation Start Site (0), the Ribosome covers positions -20 to +13 of the gene.
Genome of wild-type bacteriophage T7, positions 1476-1495. Includes the -20 to -1 region of gp0.5.
false
annotation1902509
1
SD region
range1902509
1
13
18
BBa_J44002
1
BBa_J44002
pBAD reverse
Brad Ogden
2006-08-15T11:00:00Z
2015-08-31T04:08:48Z
false
false
_71_
0
811
71
In stock
true
This is the pBAD promoter (BBa_I13453) in the opposite orientation. It can be used to drive transcription in the direction of suffix to prefix.
None.
Cloned from synthetic oligonucleotides.
true
annotation2002776
1
promoter
range2002776
1
1
130
BBa_J61102
1
BBa_J61102
Ribosome Binding Site Family Member
John Anderson
2007-01-28T12:00:00Z
2015-08-31T02:03:00Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_I14033
1
Cat
P(Cat)
Vikram Vijayan, Allen Hsu, Lawrence Fomundam
2004-08-03T11:00:00Z
2015-08-31T04:07:37Z
false
false
_4_
0
171
7
Released HQ 2013
In stock
false
Constitutive Promoter, Medium Transcription
Plasmid pACYC184
true
annotation1026172
1
-35
range1026172
1
4
9
annotation1026173
1
-10
range1026173
1
27
32
annotation1026174
1
P(Cat)
range1026174
1
1
38
BBa_J61125
1
BBa_J61125
Ribosome Binding Site Family Member
John Anderson
2007-04-24T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_K143020
1
RBS-GsiB
GsiB ribosome binding site (RBS) for B. subtilis
James Chappell
2008-09-14T11:00:00Z
2015-05-08T01:10:23Z
false
false
_199_
0
2090
9
Not in stock
false
GsiB is an endogenous ribosome binding site from ''B.subtilis''. The sequence of the gsiB ribosome binding site is '''AAAGGAGG''' which is complementary to the sequence '''UUUCCUCC''' from the 3' region of the 16s rRNA from ''B.subtilis''.
GsiB is an endogenous ribosome binding site (RBS) from ''B.subtilis''. The sequence of the gsiB ribosome binding site is '''AAAGGAGG''' which is complementary to the sequence '''UUUCCUCC''' from the 3' region of the 16s rRNA from ''B.subtilis''. Previous research showed that the predicted binding energy of the 16s rRNA to the RBS is -9.3kcal.
In order to ensure that the RBS is functional the actual ribosome binding site was maintained and the distance between the RBS and the start codon maintained. In order to conform to the biobrick standard the sequence flanking the RBS had to be changed but the distance between the promoter and RBS, and start codon and RBS was maintained.
The sequence was taken from a previous research paper [1] and was constructed by Geneart
false
annotation1975872
1
rbs
range1975872
1
2
8
BBa_J23119
1
BBa_J23119
constitutive promoter family member
John Anderson
2006-08-23T11:00:00Z
2015-08-31T04:08:40Z
false
true
_52_
0
483
95
Released HQ 2013
In stock
false
Later
N/A
Overlap extension of synthetic oligonucleotides
true
BBa_K105029
1
BBa_K105029
cyc43 minimal promoter
Michael Wild
2008-10-25T11:00:00Z
2015-05-08T01:08:52Z
false
false
_253_
0
3313
9
It's complicated
true
This is a derivate of [[Part:BBa_K105027| BBa_K105027]]. Due to a point mutation in the TATA box region the efficiency of this minimal promoter is only 43 % of the natural yeast CYC1 promoter.
<br>
<br>
This BioBrick contains the TATA-box with one point mutation and most of the 5'UTR (-139 to -36, relative to the translational start) of the natural CYC1 promoter. A Kozak sequence is not included and has thus to be added!<br>
<br>
Even if there isn't any need for this BioBrick to be fusible to other protein domains, we stayed with our design.
Amplification and Mutation from the plasmid pAH3
true
annotation1989837
1
TATA-box
range1989837
1
17
23
annotation1989838
1
A -> G
range1989838
1
23
23
BBa_B0032
1
BBa_B0032
RBS.3 (medium) -- derivative of BBa_0030
Vinay S Mahajan, Voichita D. Marinescu, Brian Chow, Alexander D Wissner-Gross and Peter Carr IAP, 2003.
2003-01-31T12:00:00Z
2015-08-31T04:07:20Z
false
true
_41_44_48_46_1_
0
24
7
Released HQ 2013
In stock
false
Weak1 RBS based on Ron Weiss thesis. Strength is considered relative to <bb_part>BBa_B0030</bb_part>, <bb_part>BBa_B0031</bb_part>, <bb_part>BBa_B0033</bb_part>.
Varies from -6 to +1 region from original sequence to accomodate BioBricks suffix ("RBS-2" in figure 4-14 of thesis). <P>
Contact info for this part: <a href="mailto:(bchow@media.mit.edu)">Brian Chow</a>
true
annotation1709
1
RBS-3\Weak
range1709
1
1
13
annotation1710
1
RBS
range1710
1
7
10
annotation7027
1
BBa_B0032
range7027
1
1
13
BBa_K777001
1
BBa_K777001
Tar receptor under the control of constitutive promoter J23100
Bianca Genenncher
2012-09-20T11:00:00Z
2015-05-08T01:13:16Z
false
false
_1029_
0
11946
9
It's complicated
true
The transmembrane chemoreceptor Tar of <i>E. coli</i> mediates chemotaxis towards aspartate.
<br>Here we used a set of 8 constitutive [http://partsregistry.org/Part:BBa_J23100 Anderson promoters] from the 2006 Berkeley group to test how different levels of constitutive ''flhDC'' expression affect the motility of ''E. coli''.
* Genomic sequence was amplified using the following primers.
** Primers PCR: Base pairs in caps represent the respective restriction sites followed by either prefix or suffix. Primers were provided by SIGMA.
*** Fwd: Tar for + prefix: 5?? actGAATTCgcggccgctTCTAGAtgattaaccgtatccgcgtagtc 3??
*** Rev: Tar rev + suffix: 5?? tcCTGCAGcggccgctACTAGTcaaaatgtttcccagtttggatc 3??
<br>
* One XbaI site was found at position 420. The restriction site was changed from TCTAGt to CCTAGt via QuikChange PCR.
** Primers QuikChange (QC): Primers were provided by SIGMA.
*** Fwd: TarQC for: 5?? ACTGATTGATTAcCTAGATTATGGCAATACTGGAG 3??
*** Rev: TarQC rev: 5?? TGCCATAATCTAGgTAATCAATCAGTTCAGTTAAC 3??<br>(the uncapitalized letter induces the mutation for removal of the XbaI site)
*The part was amplified from genomic DNA of ''E. coli'' str. K-12 substr. DH10B, complete genome (CP000948.1).
*J23100 information was taken from the partsregistry and physical DNA from the 2012 distribution kit.
false
component2189126
1
BBa_K777000
component2189122
1
BBa_J23100
annotation2189126
1
BBa_K777000
range2189126
1
42
1703
annotation2189122
1
BBa_J23100
range2189122
1
1
35
BBa_J61130
1
BBa_J61130
Ribosome Binding Site Family Member
John Anderson
2007-04-24T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_J64022
1
BBa_J64022
sicA RBS
Dan Widmaier
2008-01-16T12:00:00Z
2015-08-31T01:56:26Z
false
false
_98_
0
2407
98
Not in stock
false
This is the natural RBS from the sicA chaperone (BBa_J6021) in the Salmonella Type III Secretion System.
This part was not designed with standard biobrick assembly in mind.
Salmonella LT2 Genomic DNA
false
annotation1959621
1
misc
range1959621
1
1
20
BBa_B0073
1
BBa_B0073
Specialized RBS
Bartholomew Canton
2006-05-01T11:00:00Z
2015-08-31T04:07:21Z
false
false
_11_6_
0
135
6
Not in stock
false
-- No description --
false
BBa_J61136
1
BBa_J61136
Ribosome Binding Site Family Member
John Anderson
2007-04-24T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_K1585104
1
BBa_K1585104
Anderson Promoter with lacI binding site
Tobias Schwanemann
2015-08-31T11:00:00Z
2015-09-01T03:26:03Z
false
false
_2002_
24474
24474
9
false
Promoters of the Anderson Promoter Collection with lacI binding site derived from [http://parts.igem.org/Part:BBa_R0010 R_0010] to make them [http://openwetware.org/wiki/IPTG IPTG] iducible.
We choosed lacI-binding-site of part BBa_R0010 because we assumed older parts would be more reliable.
The part is shipped in backbone [http://parts.igem.org/Part:BBa_J61002 J61002] because the functionality is directly visible by adding IPTG. RFP ([http://parts.igem.org/Part:BBa_E1010 E1010]) should get expressed then.
[[File:K15751xx design.png |600px]]
Assambly of [http://parts.igem.org/Part:BBa_J23104 J23104] and lacI-binding-site of [http://parts.igem.org/Part:BBa_R0010 R_0010]
The "lacI binding site" of Part [http://parts.igem.org/Part:BBa_R0010 R_0010] differs from lacO from Part [http://parts.igem.org/Part:BBa_J33207 BBa_J33207].
false
component2441420
1
BBa_J23104
component2441422
1
BBa_K1585999
annotation2441420
1
BBa_J23104
range2441420
1
1
35
annotation2441422
1
BBa_K1585999
range2441422
1
44
78
BBa_B0034
1
BBa_B0034
RBS (Elowitz 1999) -- defines RBS efficiency
Vinay S Mahajan, Voichita D. Marinescu, Brian Chow, Alexander D Wissner-Gross and Peter Carr IAP, 2003.
2003-01-31T12:00:00Z
2015-08-31T04:07:20Z
false
true
_1_
0
24
7
Released HQ 2013
In stock
false
RBS based on Elowitz repressilator.
Varies from -6 to +1 region from original sequence to accomodate BioBricks suffix. <p>No secondary structures are formed in the given RBS region. Users should check for secondary structures induced in the RBS by upstream and downstream elements in the +50 to -50 region, as such structures will greatly affect the strength of the RBS.
Contact info for this part: <a href="mailto:(bchow@media.mit.edu)">Brian Chow</a>
true
annotation23325
1
conserved
range23325
1
5
8
BBa_R1074
1
const.
Constitutive Promoter I
Chris Walsh (Fighting Darwins)
2004-01-27T12:00:00Z
2015-05-08T01:14:15Z
false
false
_1_
0
24
7
Not in stock
false
constitutive promoter which outputs .3 TIPs
point mutants of wild type rrnB promoter P1
Gaal, Gourse, et al.
false
annotation309011
1
-10
range309011
1
35
40
annotation2214002
1
Help:Barcodes
range2214002
1
50
74
annotation309012
1
-35
range309012
1
15
20
BBa_K1585119
1
BBa_K1585119
Anderson Promoter with lacI binding site
Tobias Schwanemann
2015-08-31T11:00:00Z
2015-09-01T02:33:36Z
false
false
_2002_
24474
24474
9
false
Promoters of the Anderson Promoter Collection with lacI binding site derived from [http://parts.igem.org/Part:BBa_R0010 R_0010] to make them [http://openwetware.org/wiki/IPTG IPTG] iducible.
We choosed lacI-binding-site of part BBa_R0010 because we assumed older parts would be more reliable.
The part is shipped in backbone [http://parts.igem.org/Part:BBa_J61002 J61002] because the functionality is directly visible by adding IPTG. RFP ([http://parts.igem.org/Part:BBa_E1010 E1010]) should get expressed then.
[[File:K15751xx design.png |600px]]
Assambly of [http://parts.igem.org/Part:BBa_J23119 J23119] and lacI-binding-site of [http://parts.igem.org/Part:BBa_R0010 R_0010]
The "lacI binding site" of Part [http://parts.igem.org/Part:BBa_R0010 R_0010] differs from lacO from Part [http://parts.igem.org/Part:BBa_J33207 BBa_J33207].
false
component2441719
1
BBa_J23119
component2441721
1
BBa_K1585999
annotation2441721
1
BBa_K1585999
range2441721
1
44
78
annotation2441719
1
BBa_J23119
range2441719
1
1
35
BBa_J61133
1
BBa_J61133
Ribosome Binding Site Family Member
John Anderson
2007-04-24T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_J61108
1
BBa_J61108
Ribosome Binding Site Family Member
John Anderson
2007-04-23T11:00:00Z
2015-08-31T02:03:00Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_J61145
1
BBa_J61145
{rbs1} Library Member in BBb
John Anderson
2007-09-03T11:00:00Z
2015-08-31T01:56:25Z
false
false
_95_
0
483
95
Not in stock
false
{{BBbRBS1Family}}
{{BerkiGEM2007-Biobrick2.0Intro}}
Synthetic
false
BBa_J61118
1
BBa_J61118
Ribosome Binding Site Family Member
John Anderson
2007-04-23T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_B0041
1
BBa_B0041
RBS 3
Josh Michener
2005-12-20T12:00:00Z
2015-08-31T04:07:20Z
false
false
_11_
0
253
6
Not in stock
false
Modified version of B0031 from the Voigt Lab. Not currently available as an independent part (only in a tet inverter).
false
BBa_M13504
1
BBa_M13504
M13K07 gene IV RBS
Natalie Kuldell
2006-12-14T12:00:00Z
2015-05-08T01:13:56Z
false
false
_45_
0
314
1
Not in stock
false
This RBS is part of the bacteriophage M13 genome, initiating translation of the gene IV message (BBa_M13004). The part aligns with base pairs 4204-4219 in M13K07 genome. It was identified as the RBS for gene IV message by Wezenbeek et al in Gene (1980) 11: 129-148
none
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban
false
BBa_J61101
1
BBa_J61101
Ribosome Binding Site Family Member
John Anderson
2007-01-28T12:00:00Z
2015-08-31T02:03:00Z
false
false
_95_
0
483
95
In stock
false
fix
N/A
N/A
true
BBa_K105027
1
BBa_K105027
cyc100 minimal promoter
Michael Wild
2008-10-25T11:00:00Z
2015-05-08T01:08:52Z
false
false
_253_
0
3313
9
It's complicated
true
This is the core of the CYC1 promoter of ''S. cerevisiae''. This promoter element allows basal transcription. The transcription signal can be modulated by adding operator sites upstream of this BioBrick. In that way activators or repressors can act on the transcription machinery.
<br>
<br<
This BioBrick contains the TATA-box and most of the 5'UTR (-139 to -36, relative to the translational start)of the natural CYC1 promoter. A Kozak sequence is not included and has thus to be added!
Amplification from the plasmid pAH3.
true
annotation1989774
1
TATA box
range1989774
1
17
23
BBa_J23107
1
BBa_J23107
constitutive promoter family member
John Anderson
2006-08-16T11:00:00Z
2015-08-31T04:08:40Z
false
false
_52_
0
483
95
It's complicated
true
Later
N/A
Later
true
BBa_I742163
1
BBa_I742163
native ftsK rbs
Chris French
2007-10-24T11:00:00Z
2015-08-31T04:08:03Z
false
false
_123_
0
837
163
Not in stock
false
This is the native ribosome binding site of ftsK, a DNA-translocating motor protein involved in cell division in Escherichia coli.
Virtual part to be added to coding sequence BBa_I742137.
Escherichia coli JM109 (a K12 strain).
false
annotation1954640
1
SacI
range1954640
1
1
3
annotation1954641
1
rbs
range1954641
1
15
20
BBa_K1390019
1
BBa_K1390019
Complete sMMO of Methylococcus capsulatus
Torsten Meyer
2014-09-03T11:00:00Z
2015-05-08T01:10:14Z
false
false
_1767_
0
17096
9
It's complicated
true
The part consists of the six subunits of methane monooxygenase (MMO).
Gene order: mmoX, mmoY, mmoB, mmoZ, mmoD, mmoC
The expression is under control of lac+pl.
MMO converts methane to methanol.
Part is designed considering the RFC10 standard.
Methylococcus capsulatus strain Bath
false
component2412355
1
BBa_B0032
component2412349
1
BBa_R0011
component2412375
1
BBa_B0032
component2412357
1
BBa_K1390004
component2412371
1
BBa_B0032
component2412369
1
BBa_K1390006
component2412359
1
BBa_B0032
component2412365
1
BBa_K1390001
component2412363
1
BBa_B0032
component2412377
1
BBa_K1390002
component2412384
1
BBa_B0015
component2412367
1
BBa_B0032
component2412373
1
BBa_K1390003
component2412361
1
BBa_K1390005
annotation2412357
1
BBa_K1390004
range2412357
1
83
1666
annotation2412361
1
BBa_K1390005
range2412361
1
1694
2863
annotation2412384
1
BBa_B0015
range2412384
1
5275
5403
annotation2412373
1
BBa_K1390003
range2412373
1
3881
4192
annotation2412367
1
BBa_B0032
range2412367
1
3325
3337
annotation2412349
1
BBa_R0011
range2412349
1
1
54
annotation2412371
1
BBa_B0032
range2412371
1
3862
3874
annotation2412365
1
BBa_K1390001
range2412365
1
2891
3316
annotation2412363
1
BBa_B0032
range2412363
1
2872
2884
annotation2412355
1
BBa_B0032
range2412355
1
64
76
annotation2412369
1
BBa_K1390006
range2412369
1
3344
3853
annotation2412377
1
BBa_K1390002
range2412377
1
4220
5266
annotation2412375
1
BBa_B0032
range2412375
1
4201
4213
annotation2412359
1
BBa_B0032
range2412359
1
1675
1687
BBa_K1585117
1
BBa_K1585117
Anderson Promoter with lacI binding site
Tobias Schwanemann
2015-08-31T11:00:00Z
2015-09-01T02:23:31Z
false
false
_2002_
24474
24474
9
false
Promoters of the Anderson Promoter Collection with lacI binding site derived from [http://parts.igem.org/Part:BBa_R0010 R_0010] to make them [http://openwetware.org/wiki/IPTG IPTG] iducible.
We choosed lacI-binding-site of part BBa_R0010 because we assumed older parts would be more reliable.
The part is shipped in backbone [http://parts.igem.org/Part:BBa_J61002 J61002] because the functionality is directly visible by adding IPTG. RFP ([http://parts.igem.org/Part:BBa_E1010 E1010]) should get expressed then.
[[File:K15751xx design.png |600px]]
Assambly of [http://parts.igem.org/Part:BBa_J23116 J23116] and lacI-binding-site of [http://parts.igem.org/Part:BBa_R0010 R_0010]
The "lacI binding site" of Part [http://parts.igem.org/Part:BBa_R0010 R_0010] differs from lacO from Part [http://parts.igem.org/Part:BBa_J33207 BBa_J33207].
false
component2441711
1
BBa_J23117
component2441713
1
BBa_K1585999
annotation2441713
1
BBa_K1585999
range2441713
1
44
78
annotation2441711
1
BBa_J23117
range2441711
1
1
35
BBa_B0036
1
BBa_B0036
Specialized RBS
Barry Canton
2004-06-07T11:00:00Z
2015-08-31T04:07:20Z
false
false
_11_6_
0
135
7
Not in stock
false
This RBS is recognized by ribosomes carrying the modified anti-Shine Dalgarno sequence as found in Brink et al. (see below)
Brink MF, Verbeet MP, de Boer HA (1995). Specialized ribosomes: highly specific translation in vivo of a single targetted mRNA species. Gene, 156, pp. 215-222
false
BBa_J54200
1
BBa_J54200
lacq_Promoter
Yusaku Nakashima
2006-10-14T11:00:00Z
2015-08-31T03:48:12Z
false
false
_76_
0
762
76
Not in stock
false
Promoter that express always.
As promoter
DNA synthesis
false
annotation1903214
1
BamHI
range1903214
1
7
13
annotation1903215
1
lacq Promoter
range1903215
1
14
48
BBa_M31201
1
BBa_M31201
Yeast CLB1 promoter region, G2/M cell cycle specific
Katherine Aull
2008-05-13T11:00:00Z
2015-05-08T01:13:59Z
false
false
_89_
0
624
89
Not in stock
false
Description of CLB1 (from SGD): B-type cyclin involved in cell cycle progression; activates Cdc28p to promote the transition from G2 to M phase; accumulates during G2 and M, then targeted via a destruction box motif for ubiquitin-mediated degradation by the proteasome.
More information found here: http://db.yeastgenome.org/cgi-bin/locus.pl?locus=CLB1
Part contains 500 bases upstream from the CLB1 ORF. Is NOT a minimal promoter, and has not been tested for composability.
Yeast consensus sequence from SGD
chrVII:703140..703639
false
BBa_J61137
1
BBa_J61137
Ribosome Binding Site Family Member
John Anderson
2007-04-24T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_B2001
1
T7 0.3
T7 RBS 0.3
Heather Keller
2006-09-26T11:00:00Z
2015-08-31T04:07:21Z
false
true
_11_
0
571
10
Not in stock
false
Test RBS from T7 that may be used in E.coli
None
T7+ genome RBS upstream of gene 0.3
false
annotation1902503
1
SD region
range1902503
1
8
12
BBa_M13106
1
BBa_M13106
M13K07 gene VI promoter
Natalie Kuldell
2006-12-15T12:00:00Z
2015-05-08T01:13:55Z
false
false
_45_
0
314
1
Not in stock
false
This part is from the bacteriophage M13 genome, bp 2716-2764 in M13K07. It directs transcription of M13 gene VI (BBa_M13506, BBa_M13006). Its identity as a promoter was described in Gene (1980) 11:129-148 based on -10,-35 homology and fragment of genome able to bind RNAP.
none
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban.
false
BBa_S03331
1
Pmra
--Specify Parts List--
Simone Macmil
2005-09-01T11:00:00Z
2015-05-08T01:14:21Z
false
false
_39_
0
318
39
Not in stock
false
Promoter for cell division genes ftsI and ftsW
BBa_S03331is based on the reguatory region preceding cell division genes in the mra cluster and includes the biobrick head and tail restriction sites.
A promoter for the first nine genes of the Escherichia coli mra cluster of cell division and cell envelope biosynthesis genes, including ftsI and ftsW. Hara H, Yasuda S, Horiuchi K and Park JT. Journal of Bacteriology (1997) 179: 5802-5811
false
BBa_J61146
1
BBa_J61146
{rbs1} Library Member in BBb
John Anderson
2007-09-03T11:00:00Z
2015-08-31T01:56:25Z
false
false
_95_
0
483
95
Not in stock
false
{{BBbRBS1Family}}
{{BerkiGEM2007-Biobrick2.0Intro}}
Synthetic
false
BBa_Z0251
1
BBa_Z0251
T7 strong promoter
T7.2
2005-04-04T11:00:00Z
2015-05-08T01:14:55Z
false
false
_10_
0
250
10
Not in stock
false
Promoter for T7 RNA polymerase
bacteriophage T7
false
annotation1476333
1
consensus sequence
range1476333
1
6
28
BBa_K105028
1
BBa_K105028
cyc70 minimal promoter
Michael Wild
2008-10-25T11:00:00Z
2015-05-08T01:08:52Z
false
false
_253_
0
3313
9
It's complicated
true
This is a derivate of [[Part:BBa_K105027| BBa_K105027]]. Due to a point mutation in the TATA box region the efficiency of this minimal promoter is only 70 % of the natural yeast CYC1 promoter.
<br>
<br>
This BioBrick contains the TATA-box with one point mutation and most of the 5'UTR (-139 to -36, relative to the translational start) of the natural CYC1 promoter. A Kozak sequence is not included and has thus to be added!<br>
<br>
Even if there isn't any need for this BioBrick to be fusible to other protein domains, we stayed with our design.
Amplification and Mutation from the plasmid pAH3
true
annotation1989836
1
A->C
range1989836
1
24
24
annotation1989835
1
TATA-box
range1989835
1
17
23
BBa_K780001
1
R38
Strong RBS for Bacillus Subtilis
Krzysztof Szczepaniak
2012-09-25T11:00:00Z
2015-05-08T01:13:18Z
false
false
_1034_
0
10271
9
It's complicated
false
Natural RBS sequence for Bacillus Subtilis, described in the literature as a strong RBS for this bacteria.
-
From genomic sequence Bacillus Subtilis.
false
BBa_K777002
1
BBa_K777002
Tar receptor under the control of constitutive promoter J23104
Bianca Genenncher
2012-09-20T11:00:00Z
2015-05-08T01:13:16Z
false
false
_1029_
0
11946
9
In stock
false
[[Image:Table_K777001-K777008_new.png|thumb|240px|right|'''Fig. 1:''' Overview of BioBricks containing the ''Tar'' gene downstream of Anderson promoters. (Activity according to Berkeley 2006)]]
The transmembrane chemoreceptor Tar of <i>E. coli</i> mediates chemotaxis towards aspartate and exists as a functional homodimer.
Here we used a set of 8 constitutive [http://partsregistry.org/Part:BBa_J23100 Anderson promoters] from the 2006 Berkeley group to test how different levels of constitutive ''Tar'' expression affect the chemotaxis of ''E. coli''.
<br> <br> <br>
<br> <br> <br>
<br> <br> <br>
<br> <br> <br>
* Genomic sequence was amplified using the following primers.
** Primers PCR: Base pairs in caps represent the respective restriction sites followed by either prefix or suffix. Primers were provided by SIGMA.
*** Fwd: Tar for + prefix: 5?? actGAATTCgcggccgctTCTAGAtgattaaccgtatccgcgtagtc 3??
*** Rev: Tar rev + suffix: 5?? tcCTGCAGcggccgctACTAGTcaaaatgtttcccagtttggatc 3??
<br>
* One XbaI site was found at position 420. The restriction site was changed from TCTAGt to CCTAGt via QuikChange PCR.
** Primers QuikChange (QC): Primers were provided by SIGMA.
*** Fwd: TarQC for: 5?? ACTGATTGATTAcCTAGATTATGGCAATACTGGAG 3??
*** Rev: TarQC rev: 5?? TGCCATAATCTAGgTAATCAATCAGTTCAGTTAAC 3??<br>(the uncapitalized letter induces the mutation for removal of the XbaI site)
*The part was amplified from genomic DNA of ''E. coli'' str. K-12 substr. DH10B, complete genome (CP000948.1).
*J23100 information was taken from the partsregistry and physical DNA from the 2012 distribution kit.
false
component2189242
1
BBa_K777000
component2189238
1
BBa_J23104
annotation2189238
1
BBa_J23104
range2189238
1
1
35
annotation2189242
1
BBa_K777000
range2189242
1
42
1703
BBa_I712074
1
BBa_I712074
T7 promoter (strong promoter from T7 bacteriophage)
Rok Gaber
2007-10-21T11:00:00Z
2015-08-31T04:07:46Z
false
false
_130_
0
1856
9
In stock
false
T7 promoter is very specific promoter which is transcribed only by specific T7 RNA polymerase. Usually this promoter is used in expression systems where T7 promoter is cotransfected with T7 RNA polymerase. That ensures strong transcription of desired genes.
T7 bacteriophage
true
BBa_J61121
1
BBa_J61121
Ribosome Binding Site Family Member
John Anderson
2007-04-24T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_J61106
1
BBa_J61106
Ribosome Binding Site Family Member
John Anderson
2007-04-23T11:00:00Z
2015-08-31T02:03:00Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_K105030
1
BBa_K105030
cyc28 minimal promoter
Michael Wild
2008-10-25T11:00:00Z
2015-05-08T01:08:52Z
false
false
_253_
0
3313
9
It's complicated
true
This is a derivate of [[Part:BBa_K105027| BBa_K105027]]. Due to a point mutation in the TATA box region the efficiency of this minimal promoter is only 28 % of the natural yeast CYC1 promoter.
<br>
<br>
This BioBrick contains the TATA-box with one point mutation and most of the 5'UTR (-139 to -36, relative to the translational start) of the natural CYC1 promoter. A Kozak sequence is not included and has thus to be added!<br>
<br>
Even if there isn't any need for this BioBrick to be fusible to other protein domains, we stayed with our design.
Amplification and Mutation from the plasmid pAH3
true
annotation1989840
1
A -> T
range1989840
1
22
22
annotation1989839
1
TATA-box
range1989839
1
17
23
BBa_K121016
1
BBa_K121016
Tokyo Standard prefix suffix RBS
Shotaro Ayukawa
2008-10-25T11:00:00Z
2015-05-08T01:09:41Z
false
false
_220_
0
765
76
Not in stock
false
Restriction sites of Sal I, Bam HI, Bgl II, and Mlu I in front of strong RBS
We designed new prefix(Sal I and Bam HI) and suffix(Bgl II and Mul I) for insertions of promoters and regulator binding sites in front of RBS.
RBS is from BBa_0030
false
annotation1988248
1
Bgl II
range1988248
1
26
31
annotation1988216
1
B0030
range1988216
1
50
64
annotation1988246
1
Sal I
range1988246
1
1
6
annotation1988250
1
Mlu I
range1988250
1
41
46
annotation1988247
1
Bam HI
range1988247
1
15
20
BBa_I712004
1
BBa_I712004
CMV promoter
Andrej Ondracka
2007-10-18T11:00:00Z
2015-08-31T04:07:45Z
false
false
_130_
0
1896
9
It's complicated
false
a constitutive expression promoter or use in mammalian cells. Ribosome binding site is included.
Cloned into pSB1AC3 vector.
pcDNA3 by Invitrogen
false
BBa_B0039
1
BBa_B0039
RBS 2
Josh Michener
2005-12-20T12:00:00Z
2015-08-31T04:07:20Z
false
false
_11_
0
253
6
Not in stock
false
Modified version of B0031 from the Voigt Lab. Not currently available as an independent part (only in a tet inverter).
false
BBa_J61140
1
BBa_J61140
{rbs1} Library Member in BBb
John Anderson
2007-09-03T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
Not in stock
false
{{BBbRBS1Family}}
{{BerkiGEM2007-Biobrick2.0Intro}}
Synthetic
false
BBa_K137032
1
BBa_K137032
constitutive promoter with (C)12 between -10 and -35 elements
Allen Lin
2008-07-20T11:00:00Z
2015-05-08T01:10:09Z
false
false
_187_
0
3112
9
It's complicated
false
constitutive promoter with (C)12 between -10 and -35 elements
With 12 C repeats between the -10 and -35 elements, the distance between the two elements is optimal for the sigma factor to bind to the promoter. Thus, the promoter should be in the 'on' state.
This part was PCR amplified from two synthesized primers that bound to each other.
false
annotation1967773
1
-10 element
range1967773
1
52
57
annotation1967774
1
c repeat
range1967774
1
27
38
BBa_K113012
1
BBa_K113012
weaken overlapping T7 promoter
Wu Jingjing, Wang Jinyu
2008-10-25T11:00:00Z
2015-05-08T01:09:20Z
false
false
_254_
0
2711
9
It's complicated
false
Two T7 promoters are reversely overlapping in two base pairs while a point mutation occurs at the 12th base pair, from A-T to T-A.
It is difficult to make this short DNA by PCR as both sides are T7 promoters, which are very similar. It is highly possible that they form loops before they can be synthesized by PCR. Thus we order two single stranded DNA and then anneal them together by touchdown PCR.
The sequence of T7 promoter is TAATACGACTCACTATA (from 5' to 3').
false
annotation1989400
1
T7 promoter
range1989400
1
4
21
annotation1989402
1
T7 promoter
range1989402
1
20
37
BBa_K777105
1
BBa_K777105
flhDC operon under the control of constitutive promoter J23109
Team Goettingen
2012-09-18T11:00:00Z
2015-05-08T01:13:16Z
false
false
_1029_
0
12106
9
In stock
false
[[Image:Table_K777101-K777108_new.jpg|thumb|240px|right|'''Fig. 1:''' Overview of BioBricks containing the ''flhDC'' operon downstream of Anderson promoters. (Activity according to Berkeley 2006)]]
The ''flhDC'' operon is the master regulator of motility and chemotaxis in ''E. coli''. FlhDC forms heterotetramers and activates class II operons in concert with sigma factor 70. Among the gene products of class II operons are several components of the flagellum and the alternative sigma factor FliA which is essential for the transcription of class III genes.
<br>Here we used a set of 8 constitutive Anderson-promoters from the 2006 Berkeley group to test how different levels of constitutive ''flhDC'' expression affect the motility of ''E. coli''.
*The PstI restriction site in the ''flhDC'' sequence was mutated to CTGCGG using the reverse primer.
*''flhDC'' was amplified from genomic DNA of ''E. coli'' DH10B via PCR using the following primers:
**Fwd: 5'-actgaattcgcggccgcttctagatgcatacctccgagttgctg-3'
**Rev: 5'-tcctgcagcggccgctactagttactgcccgggatggcggttgacataagcCgcaggcaaagctgccaacag-3' <br>(the capitalized "C" induces the mutation for removal of the PstI site)
*The part was amplified from genomic DNA of ''E. coli'' str. K-12 substr. DH10B, complete genome (CP000948.1).
*J23109 information was taken from the partsregistry and physical DNA from the 2012 distribution kit.
false
component2187048
1
BBa_J23109
component2187056
1
BBa_K777100
annotation2187056
1
BBa_K777100
range2187056
1
42
910
annotation2187048
1
BBa_J23109
range2187048
1
1
35
BBa_K823003
1
BBa_K823003
P<sub>veg</sub>
Korinna Kraft
2012-07-15T11:00:00Z
2015-05-08T01:13:29Z
false
false
_1081_
0
12081
9
Released HQ 2013
In stock
false
Pveg is a strong, constitutive promoter of Bacillus subtilis
no considerations
Bacillus subtilis
false
annotation2190180
1
promoter
range2190180
1
1
237
BBa_B0035
1
BBa_B0035
RBS (B0030 derivative)
Jason Kelly
2004-01-27T12:00:00Z
2015-08-31T04:07:20Z
false
false
_1_
0
24
7
Not in stock
false
-- No description --
false
BBa_J61124
1
BBa_J61124
Ribosome Binding Site Family Member
John Anderson
2007-04-24T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_J64808
1
BBa_J64808
RocE RBS
David Stanley
2007-03-19T12:00:00Z
2015-05-08T01:08:17Z
false
false
_98_
0
1423
98
Not in stock
false
RBS preceding RocE
n
n
false
BBa_K292001
1
BBa_K292001
Double terminator + Constitutive promoter + Strong RBS
David Charoy
2009-10-17T11:00:00Z
2015-05-08T01:11:49Z
false
false
_394_
0
5212
9
It's complicated
false
This part contains a double terminator and a constitutive prokaryotic promoter and a strong RBS (BBa_B0014 + BBa_J23100 + BBa_B0030). It is a simple promoter in the goals to begin gene transcription. For Sup???biotech-Paris (2009) team this part is used when adding to a recombinant lambda phage and to begin the transcription of synthetic genes inside the Lambda phage genome.
N/A
BBa_B0014 : Designed by Reshma Shetty Group: Registry (2003-07-16).<br>
BBa_J23100 : Designed by John Anderson Group: iGEM2006_Berkeley (2006-08-04.)<br>
BBa_B0030 : Designed by Vinay S Mahajan, Voichita D. Marinescu, Brian Chow, Alexander D Wissner-Gross and Peter Carr IAP, 2003. Group: NCBS, Prather Lab.
false
component2052033
1
BBa_B0012
component2052041
1
BBa_B0030
component2052039
1
BBa_J23100
component2052037
1
BBa_B0011
annotation2052041
1
BBa_B0030
range2052041
1
147
161
annotation2052039
1
BBa_J23100
range2052039
1
104
138
annotation2052033
1
BBa_B0012
range2052033
1
1
41
annotation2052037
1
BBa_B0011
range2052037
1
50
95
BBa_J61131
1
BBa_J61131
Ribosome Binding Site Family Member
John Anderson
2007-04-24T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_J23117
1
BBa_J23117
constitutive promoter family member
John Anderson
2006-08-16T11:00:00Z
2015-08-31T04:08:40Z
false
true
_52_
0
483
95
Released HQ 2013
In stock
true
Later
N/A
Later
true
BBa_K150005
1
BBa_K150005
ribosome binding site of pTrc99a
Pascal Kraemer
2008-10-20T11:00:00Z
2015-05-08T01:10:46Z
false
false
_234_
0
3299
9
Not in stock
false
ribosome binding site of pTrc99a
-
-
false
annotation1983190
1
BBa_K150005
range1983190
1
1
13
BBa_K124000
1
BBa_K124000
pCYC Yeast Promoter
John Szymanski
2008-06-30T11:00:00Z
2015-05-08T01:09:44Z
false
false
_221_
0
2512
58
Not in stock
false
The promoter from the yeast gene CYC1. Activity characterized here: http://dx.doi.org/10.1016/0378-1119(95)00037-7.
none
From Mumberg, Muller, and Funk p413 pCYC. See ref. above
false
BBa_B0078
1
BBa_B0078
Specialized RBS
Bartholomew Canton
2006-05-01T11:00:00Z
2015-08-31T04:07:21Z
false
false
_11_6_
0
135
6
Not in stock
false
-- No description --
false
BBa_K256018
1
BBa_K256018
J23119:IFP
iGEM09_NTU-Singapore
2009-10-16T11:00:00Z
2015-05-08T01:11:41Z
false
false
_359_
0
4864
9
It's complicated
true
IFP Generator
--
--
false
component2048512
1
BBa_B0010
component2048508
1
BBa_J23119
component2048510
1
BBa_B0034
component2048514
1
BBa_B0012
component2048511
1
BBa_K256008
annotation2048510
1
BBa_B0034
range2048510
1
44
55
annotation2048508
1
BBa_J23119
range2048508
1
1
35
annotation2048512
1
BBa_B0010
range2048512
1
1039
1118
annotation2048511
1
BBa_K256008
range2048511
1
62
1030
annotation2048514
1
BBa_B0012
range2048514
1
1127
1167
BBa_J23114
1
BBa_J23114
constitutive promoter family member
John Anderson
2006-08-16T11:00:00Z
2015-08-31T04:08:40Z
false
true
_52_
0
483
95
Released HQ 2013
In stock
true
Later
N/A
Later
true
BBa_K777004
1
BBa_K777004
Tar receptor under the control of constitutive promoter J23106
Bianca Genenncher
2012-09-20T11:00:00Z
2015-05-08T01:13:16Z
false
false
_1029_
0
11946
9
It's complicated
false
[[Image:Table_K777001-K777008_new.png|thumb|240px|right|'''Fig. 1:''' Overview of BioBricks containing the ''Tar'' gene downstream of Anderson promoters. (Activity according to Berkeley 2006)]]
The transmembrane chemoreceptor Tar of <i>E. coli</i> mediates chemotaxis towards aspartate and exists as a functional homodimer.
Here we used a set of 8 constitutive [http://partsregistry.org/Part:BBa_J23106 Anderson promoters] from the 2006 Berkeley group to test how different levels of constitutive ''Tar'' expression affect the chemotaxis of ''E. coli''.
<br> <br> <br>
<br> <br> <br>
<br> <br> <br>
<br> <br> <br>
* Genomic sequence was amplified using the following primers.
** Primers PCR: Base pairs in caps represent the respective restriction sites followed by either prefix or suffix. Primers were provided by SIGMA.
*** Fwd: Tar for + prefix: 5?? actGAATTCgcggccgctTCTAGAtgattaaccgtatccgcgtagtc 3??
*** Rev: Tar rev + suffix: 5?? tcCTGCAGcggccgctACTAGTcaaaatgtttcccagtttggatc 3??
<br>
* One XbaI site was found at position 420. The restriction site was changed from TCTAGt to CCTAGt via QuikChange PCR.
** Primers QuikChange (QC): Primers were provided by SIGMA.
*** Fwd: TarQC for: 5?? ACTGATTGATTAcCTAGATTATGGCAATACTGGAG 3??
*** Rev: TarQC rev: 5?? TGCCATAATCTAGgTAATCAATCAGTTCAGTTAAC 3??<br>(the uncapitalized letter induces the mutation for removal of the XbaI site)
*The part was amplified from genomic DNA of ''E. coli'' str. K-12 substr. DH10B, complete genome (CP000948.1).
*J23106 information was taken from the partsregistry and physical DNA from the 2012 distribution kit.
false
component2189302
1
BBa_K777000
component2189298
1
BBa_J23106
annotation2189302
1
BBa_K777000
range2189302
1
42
1703
annotation2189298
1
BBa_J23106
range2189298
1
1
35
BBa_J61115
1
BBa_J61115
Ribosome Binding Site Family Member
John Anderson
2007-04-23T11:00:00Z
2015-08-31T02:03:00Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_K1614000
1
BBa_K1614000
T7 promoter for expression of functional RNA
Stefan Holderbach
2015-09-13T11:00:00Z
2015-09-14T12:29:29Z
false
false
_2031_
12380
16422
9
false
Test
None.
T7 phage minimal promoter (consensus)
false
annotation2454728
1
T7 promoter
range2454728
1
1
17
BBa_K143010
1
Pctc
Promoter ctc for B. subtilis
James Chappell
2008-09-10T11:00:00Z
2015-05-08T01:10:23Z
false
false
_199_
0
2090
9
Not in stock
false
Promoter ctc is a sigma factor B dependent promoter found in ''B.subtilis''. In ''B.subtilis'' endogenous sigma factor B is activated under mild stress. These mild stress conditions can be generally split into nutrient stress response and physical stress response. Nutrient stress response is triggered by low levels of ATP and GTP and physical stress response is triggered by exposure to blue light, salt, heat, acid or ethanol<cite>1</cite>. The promoter ctc has been used previously as a read out for the activation of sigma factor B <cite>2</cite>.
*The context with which we used the promoter ctc, was to take blue light as an input and give '''Polymerase Per Second'''(PoPS) as an output. To do this the other potential inputs need to be carefully controlled so that only blue light activated the sigma B and gives a PoPS output. In order to get sufficient sigma B activation by blue light the light receptor YtvA, part...., needs to be over expressed in ''B.subtilis'' <cite>3</cite>.
===Reference===
<biblio>
#1 pmid=16267279
#2 pmid=3100810
#3 pmid=17575448
</biblio>
Biobrick standard was applied to the promoter ctc sequence.
The part was designed using the sequence from the ''B.subtilis'' genome and from previously published papers <cite>2</cite><cite>3</cite>. This sequence was then synthesised by Geneart.
false
annotation1975701
1
Sigma B -35
range1975701
1
21
28
annotation1975700
1
Sigma B -10
range1975700
1
41
46
BBa_K1468000
1
BBa_K1468000
pJ23104 + gene encoding ZsGreen
Pedro Luis Dorado Morales
2014-10-02T11:00:00Z
2015-05-08T01:10:38Z
false
false
_1847_
0
11756
9
It's complicated
true
-
-
-
false
annotation2418061
1
START
range2418061
1
34
36
annotation2418062
1
ZsGreeen
range2418062
1
34
725
annotation2418810
1
BBa_K1468000
range2418810
1
1
725
annotation2418060
1
BBa_E0040
range2418060
1
34
725
annotation2418059
1
ZsGreen protein
range2418059
1
34
725
annotation2418064
1
STOP
range2418064
1
725
725
annotation2418030
1
J23104p
range2418030
1
1
33
annotation2418058
1
BBa_J23104
range2418058
1
1
33
BBa_J64018
1
BBa_J64018
invJ RBS
Dan Widmaier
2008-01-16T12:00:00Z
2015-08-31T01:56:26Z
false
false
_98_
0
2407
98
Not in stock
false
This part is the natural RBS associated with the invJ protein in Salmonella Typhimurium LT2.
This part was not designed with compliance to biobrick standard assembly in mind.
Salmonella Typhimurium LT2 Genomic DNA
false
annotation1959617
1
invJ RBS
range1959617
1
1
17
BBa_K780003
1
BBa_K780003
Strong constitutive promoter for Bacillus subtilis
Elżbieta Jankowska
2012-09-25T11:00:00Z
2015-05-08T01:13:18Z
false
false
_1034_
0
10113
9
It's complicated
false
Strong constitutive promoter for Bacillus subtilis
-
'host-takover module' from B.subtilis Bacteriophage SPO1
false
BBa_M13509
1
BBa_M13509
M13Ko7 gene IX RBS
Natalie Kuldell
2006-12-14T12:00:00Z
2015-05-08T01:13:56Z
false
false
_45_
0
314
1
Not in stock
false
This RBS is part of the bacteriophage M13 genome, initiating translation of the gene IX message (BBa_M13009). The part aligns with base pairs 1190-1205 in M13K07 genome. It was identified as the RBS for gene IX message by Wezenbeek et al in Gene (1980) 11: 129-148
none
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban
false
BBa_B0064
1
BBa_B0064
Tuned RBS for Q04401
Jason Kelly
2008-02-23T12:00:00Z
2015-08-31T04:07:21Z
false
false
_11_
0
2
84
Not in stock
false
This is a single bp change from B0034. It's strength is approximately 35% that of B0034.
.
.
false
BBa_R0181
1
BBa_R0181
T7 RNAP promoter
Barry Canton
2005-09-25T11:00:00Z
2015-05-08T01:14:15Z
false
false
_11_6_
0
135
6
Not in stock
false
T7 promoter with an T->G mutation at the -17 position of the consensus sequence
false
BBa_J61127
1
BBa_J61127
Ribosome Binding Site Family Member
John Anderson
2007-04-24T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
true
BBa_B0037
1
BBa_B0037
Specialized RBS
Barry Canton
2005-12-06T12:00:00Z
2015-08-31T04:07:20Z
false
false
_11_6_
0
135
6
Not in stock
false
RBS specific to dedicated ribosomes. This RBS is a modified version of B0036. The spacing between the SD sequence and the start codon has been increased by 5 bases to give the same spacing as used by Brink et al. The 5 bases are the same as those used by Brink. That means they form the first five bases of an XbaI site and no negative affects of using these bases are known at present.
Brink MF, Verbeet MP, de Boer HA (1995). Specialized ribosomes: highly specific translation in vivo of a single targetted mRNA species. Gene, 156, pp. 215-222
false
BBa_K090505
1
BBa_K090505
''Bacillus subtilis'' consensus RBS
Daniel Goodman
2008-10-27T12:00:00Z
2015-05-08T01:08:37Z
false
false
_188_
0
3501
9
Not in stock
false
This is the consensus RBS for Bacillus subtilis.
The part must be 8 nucleotides away from the first methionine of the coding sequence, and so we added 'TGT' downstream of the actual binding sequence: AAAGGAGG. This, combined with the truncated non-CDS BioBrick prefix scar, gives exactly 8 'spacer bases' between the 3' end of the RBS and the start of the coding sequence.
This part was synthesized directly.
false
annotation1992802
1
B. subtilis consensus RBS
range1992802
1
1
8
BBa_M13102
1
BBa_M13102
M13K07 gene II promoter
Natalie Kuldell
2006-12-15T12:00:00Z
2015-05-08T01:13:55Z
false
true
_45_
0
314
1
Not in stock
false
This part is from the bacteriophage M13 genome. It directs transcription of M13 gene II (BBa_M13502, BBa_M13002). Promoter identified in Gene (1980) 11:129-148 based on -10,-35 homology and fragment of genome able to bind RNAP.
none
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban.
false
BBa_J23104
1
BBa_J23104
constitutive promoter family member
John Anderson
2006-08-03T11:00:00Z
2015-08-31T04:08:40Z
false
false
_52_
0
483
95
In stock
true
replace later
N/A
isolated from library of promoters
true
BBa_J23150
1
BBa_J23150
1bp mutant from J23107
Jason Kelly
2008-02-11T12:00:00Z
2015-08-31T04:08:41Z
false
true
_11_
0
2
84
Released HQ 2013
In stock
false
.
.
..
false
BBa_R0182
1
BBa_R0182
T7 RNAP promoter
Barry Canton
2005-09-25T11:00:00Z
2015-05-08T01:14:15Z
false
false
_11_6_
0
135
6
Not in stock
false
T7 promoter with an A->T mutation at the -10 position of the consensus sequence
false
BBa_J64030
1
BBa_J64030
sopD RBS
Dan Widmaier
2008-01-16T12:00:00Z
2015-08-31T01:56:26Z
false
false
_98_
0
2407
98
Not in stock
false
This is the natural RBS from the sopD gene in Salmonella Type III Secretion.
This part was designed without consideration for biobrick standard assembly. This RBS has not been explicitly tested for expression rate.
Salmonella LT2 Genomic DNA
false
annotation1959634
1
sopD RBS
range1959634
1
1
17
BBa_J64908
1
creC RBS
RBS for creC in e coli operon
Ryan Ritterson
2007-03-19T12:00:00Z
2015-05-08T01:08:17Z
false
false
_98_
0
1422
98
Not in stock
false
The ribosomal binding site for gene creC in the E Coli cre operon.
natural sequence, no design
E Coli K12 strain.
false
BBa_K076017
1
BBa_K076017
Ubc Promoter
Available
2008-10-29T12:00:00Z
2015-05-08T01:08:32Z
false
false
_215_
0
3466
9
Not in stock
false
This is a stable constitutive promoter.
Using this promoter allows for the constant expression of a reporter gene or a selectable antibiotic.
This part was obtained from members of the Weiss Lab.
false
BBa_J64809
1
BBa_J64809
RocF RBS
David Stanley
2007-03-19T12:00:00Z
2015-05-08T01:08:17Z
false
false
_98_
0
1423
98
Not in stock
false
RBS upstream of RocF
n
n
false
BBa_K809101
1
BBa_K809101
Mitochondrial shuttle plasmid carried mtGFP
Senwei TANG, Qiwu XU
2012-09-19T11:00:00Z
2015-05-08T01:13:26Z
false
false
_1066_
0
11943
9
It's complicated
true
Mitochondrial expression vector, with initial site ori7, up elements of cox2 gene (including promoter and RBS), and mtGFP.
-
-
false
component2192206
1
BBa_K809003
component2192208
1
BBa_K809001
component2192205
1
BBa_K809002
annotation2192206
1
BBa_K809003
range2192206
1
387
883
annotation2192208
1
BBa_K809001
range2192208
1
890
1606
annotation2192205
1
BBa_K809002
range2192205
1
1
378
BBa_J61112
1
BBa_J61112
Ribosome Binding Site Family Member
John Anderson
2007-04-23T11:00:00Z
2015-08-31T02:03:00Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_I766555
1
BBa_I766555
pCyc (Medium) Promoter
Nili Sommovilla
2007-08-15T11:00:00Z
2015-08-31T04:08:10Z
false
false
_155_
0
1931
9
Not in stock
false
Mid-expression level constitutive promoter in yeast
none
Endogenous promoter for Cytochrome c
false
BBa_J63005
1
P0310
yeast ADH1 promoter
Caroline Ajo-Franklin
2006-10-10T11:00:00Z
2015-08-31T01:56:26Z
false
true
_97_
0
545
97
It's complicated
false
ADH1 promoter from S. cerevisiae
no changes to genomic sequence
genomic DNA of ADH1 from S. cerevisiae
true
annotation1902745
1
TATA Box
range1902745
1
1348
1354
annotation1902744
1
Constitutive promoter
range1902744
1
1
1445
BBa_J23111
1
BBa_J23111
constitutive promoter family member
John Anderson
2006-08-16T11:00:00Z
2015-08-31T04:08:40Z
false
true
_52_
0
483
95
In stock
true
Later
N/A
Later
true
BBa_K608351
1
BBa_K608351
(correct) temperature sensitive promoter
Theodhor Tiko
2011-09-13T11:00:00Z
2015-05-08T01:12:52Z
false
false
_780_
0
9113
9
Released HQ 2013
In stock
false
correct temperatursesitive promotor
asd
asd
false
annotation2131302
1
BBa_B0034
range2131302
1
44
55
annotation2131314
1
OR1
range2131314
1
924
940
annotation2131304
1
BBa_K098997
range2131304
1
62
775
annotation2131305
1
BBa_B0012
range2131305
1
797
837
annotation2131313
1
-35
range2131313
1
914
919
annotation2131306
1
T7 TE
range2131306
1
804
823
annotation2131308
1
stop
range2131308
1
830
830
annotation2131312
1
BBa_R0051
range2131312
1
900
948
annotation2131315
1
-10
range2131315
1
937
942
annotation2131311
1
OR2
range2131311
1
900
916
annotation2131307
1
polya
range2131307
1
824
837
annotation2131425
1
conserved
range2131425
1
776
788
annotation2131301
1
conserved
range2131301
1
48
51
annotation2131309
1
BBa_B0011
range2131309
1
846
891
annotation2131300
1
BBa_J23114
range2131300
1
1
35
annotation2131310
1
stem_loop
range2131310
1
858
880
annotation2131303
1
cIts
range2131303
1
62
775
BBa_K1847000
1
BBa_K1847000
promoter-RBS- annexin AV
Anna Fomitcheva, Lisa Baumgartner
2015-08-23T11:00:00Z
2015-09-17T08:44:38Z
false
false
_2273_
26442
26442
9
false
Annexin V is member of the annexin family of Ca dependent proteins. Its function is not yet known. It binds to phosphatidylserine in a Ca-dependen fashion.
In combination with RBS B0032 there is no detectable expression of annexin V.
Synthetic synthesis
false
annotation2437961
1
J23114
range2437961
1
1
35
annotation2437962
1
B0032
range2437962
1
44
56
annotation2437963
1
Annexin V optimized for E. coli
range2437963
1
63
1025
BBa_K105031
1
BBa_K105031
cyc16 minimal promoter
Michael Wild
2008-10-25T11:00:00Z
2015-05-08T01:08:52Z
false
false
_253_
0
3313
9
It's complicated
true
This is a derivate of [[Part:BBa_K105027| BBa_K105027]]. Due to a point mutation in the TATA box region the efficiency of this minimal promoter is only 16 % of the natural yeast CYC1 promoter.
<br>
<br>
This BioBrick contains the TATA-box with one point mutation and most of the 5'UTR (-139 to -36, relative to the translational start) of the natural CYC1 promoter. A Kozak sequence is not included and has thus to be added!<br>
<br>
Even if there isn't any need for this BioBrick to be fusible to other protein domains, we stayed with our design.
Amplification and Mutation from the plasmid pAH3
true
annotation1989845
1
A -> G
range1989845
1
22
22
annotation1989843
1
TATA-box
range1989843
1
17
23
BBa_M13110
1
BBa_M13110
M13110
Natalie Kuldell
2006-12-15T12:00:00Z
2015-05-08T01:13:55Z
false
false
_45_
0
314
1
Not in stock
false
This part is from the bacteriophage M13 genome, bp 381-428 in M13K07. It directs transcription of M13 gene X (BBa_M13510, BBa_M13010). Its identity as a promoter was described in Gene (1980) 11:129-148 based on -10,-35 homology and fragment of genome able to bind RNAP.
none
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban.
false
BBa_J64997
1
BBa_J64997
T7 consensus -10 and rest
Sai Duriseti
2007-03-25T11:00:00Z
2015-05-08T01:08:18Z
false
false
_98_
0
1428
98
Not in stock
false
false
annotation1921746
1
T7-10
range1921746
1
1
19
BBa_K780002
1
R37
Strong RBS for Bacillus Subtilis
Krzysztof Szczepaniak
2012-09-25T11:00:00Z
2015-05-08T01:13:18Z
false
false
_1034_
0
10113
9
It's complicated
false
Strong RBS for Bacillus Subtilis
-
'host-takover module' from B.subtilis Bacteriophage SPO1
false
BBa_M13505
1
BBa_M13505
M13KO7 gene V RBS
Natalie Kuldell
2006-12-14T12:00:00Z
2015-05-08T01:13:56Z
false
false
_45_
0
314
1
Not in stock
false
This RBS is part of the bacteriophage M13 genome, initiating translation of the gene V message (BBa_M13005). The part aligns with base pairs 827-842 in M13K07 genome. It was identified as the RBS for the gene V message by Wezenbeek et al in Gene (1980) 11: 129-148
none
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban
false
BBa_J29048
1
RBS
RBS
Maiko Furubayashi
2006-10-19T11:00:00Z
2015-08-31T04:08:45Z
false
false
_59_
0
846
59
Not in stock
false
strong rbs
false
BBa_K777006
1
BBa_K777006
Tar receptor under the control of constitutive promoter J23112
Bianca Genenncher
2012-09-20T11:00:00Z
2015-05-08T01:13:16Z
false
false
_1029_
0
11946
9
It's complicated
false
[[Image:Table_K777001-K777008_new.png|thumb|240px|right|'''Fig. 1:''' Overview of BioBricks containing the ''Tar'' gene downstream of Anderson promoters. (Activity according to Berkeley 2006)]]
The transmembrane chemoreceptor Tar of <i>E. coli</i> mediates chemotaxis towards aspartate and exists as a functional homodimer.
Here we used a set of 8 constitutive [http://partsregistry.org/Part:BBa_J23112 Anderson promoters] from the 2006 Berkeley group to test how different levels of constitutive ''Tar'' expression affect the chemotaxis of ''E. coli''.
<br> <br> <br>
<br> <br> <br>
<br> <br> <br>
<br> <br> <br>
* Genomic sequence was amplified using the following primers.
** Primers PCR: Base pairs in caps represent the respective restriction sites followed by either prefix or suffix. Primers were provided by SIGMA.
*** Fwd: Tar for + prefix: 5?? actGAATTCgcggccgctTCTAGAtgattaaccgtatccgcgtagtc 3??
*** Rev: Tar rev + suffix: 5?? tcCTGCAGcggccgctACTAGTcaaaatgtttcccagtttggatc 3??
<br>
* One XbaI site was found at position 420. The restriction site was changed from TCTAGt to CCTAGt via QuikChange PCR.
** Primers QuikChange (QC): Primers were provided by SIGMA.
*** Fwd: TarQC for: 5?? ACTGATTGATTAcCTAGATTATGGCAATACTGGAG 3??
*** Rev: TarQC rev: 5?? TGCCATAATCTAGgTAATCAATCAGTTCAGTTAAC 3??<br>(the uncapitalized letter induces the mutation for removal of the XbaI site)
*The part was amplified from genomic DNA of ''E. coli'' str. K-12 substr. DH10B, complete genome (CP000948.1).
*J23112 information was taken from the partsregistry and physical DNA from the 2012 distribution kit.
false
component2189394
1
BBa_J23112
component2189398
1
BBa_K777000
annotation2189398
1
BBa_K777000
range2189398
1
42
1703
annotation2189394
1
BBa_J23112
range2189394
1
1
35
BBa_B2101
1
BBa_B2101
T7 RBS 0.3 + SapI (rev)
Heather Keller
2006-09-27T11:00:00Z
2015-08-31T04:07:21Z
false
false
_11_
0
571
10
Not in stock
false
This version of the T7 0.3 RBS is designed for construction via Heather Keller's alternative assembly plan using XbaI and SapI for RBS/CDS assembly without a mixed site. Contains the -20 to -1 region of gp0.4 from the wild-type T7 genome. Can also be used with Standard BioBricks assembly, although this will add a 7 amino acid fusion to the N-terminus of the resulting protein.
This RBS is designed to be compatible with Heather Keller's RBS assembly scheme for creating RBS/CDS junctions without a mixed site. For use in this scheme, this part should be cut with XbaI and SapI. It must be used with a coding sequence containing the SapI site at the 5' end. This part is not compatible with CDSs that use a GTG site and must be used with CDSs using an ATG start site.
The two bp spacer on the 3' end also allows this part to be used in standard biobricks assembly and is necessary to maintain the reading frame of a downstream CDS. Note that Standard Biobricks Assembly with this part results in the creation of a new ATG start site, and a 7 amino acid fusion at the N terminus of the downstream protein. CDSs with alternative start sites are compatible with this part via Standard Assembly.
This part was inadvertently constructed without the single base pair (G/C) that separates the XbaI site and the 5' end of the part.
The RBS is taken from the wild-type bacteriophage T7 genome. Please see part B2001 for more information.
false
component2218355
1
BBa_B2001
annotation2218355
1
BBa_B2001
range2218355
1
1
20
BBa_J23115
1
BBa_J23115
constitutive promoter family member
John Anderson
2006-08-16T11:00:00Z
2015-08-31T04:08:40Z
false
true
_52_
0
483
95
In stock
true
Later
N/A
Later
true
BBa_J64011
1
BBa_J64011
invB RBS
Dan Widmaier
2008-01-15T12:00:00Z
2015-08-31T01:56:26Z
false
false
_98_
0
2407
98
Not in stock
false
The natural RBS that drives invB
The expression level of this RBS has not been quantified.
Salmonella LT2 Genomic DNA
false
annotation1959604
1
invB RBS
range1959604
1
1
19
BBa_I742150
1
BBa_I742150
crtE native rbs
Chris French
2007-10-23T11:00:00Z
2015-08-31T04:08:03Z
false
false
_123_
0
837
163
Not in stock
false
This is the native ribosome binding site of crtE (geranylgeranyl pyrophosphate synthase) from Pantoea ananatis (formerly Erwinia uredovora) DSMZ 30080 (ATCC 19321) Accession: D90087.
This is a virtual part to be added, blunt ended, to the coding sequence.
Pantoea ananatis (formerly Erwinia uredovora) DSMZ 30080 (ATCC 19321) Accession: D90087.
false
BBa_M13502
1
BBa_M13502
M13KO7 gene II RBS
Natalie Kuldell
2006-12-14T12:00:00Z
2015-05-08T01:13:56Z
false
false
_45_
0
314
1
Not in stock
false
This RBS is part of the bacteriophage M13 genome, initiating translation of the gene II message (BBa_M13002). The part aligns with base pairs 8252-8267 in M13K07 genome. It was identified as the RBS for gene II message by Wezenbeek et al in Gene (1980) 11: 129-148
none
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban
false
BBa_J23151
1
BBa_J23151
1bp mutant from J23114
Jason Kelly
2008-02-11T12:00:00Z
2015-08-31T04:08:41Z
false
false
_11_
0
2
84
Not in stock
false
.
.
.
false
BBa_J23108
1
BBa_J23108
constitutive promoter family member
John Anderson
2006-08-16T11:00:00Z
2015-08-31T04:08:40Z
false
true
_52_
0
483
95
In stock
true
Later
N/A
Later
true
BBa_K418002
1
CP1LacPI2
IPTG inducible Lac promoter cassette
Northwestern University iGEM 2010
2010-10-15T11:00:00Z
2015-05-08T01:12:28Z
false
false
_532_
0
6938
9
It's complicated
false
N/A
N/A
N/A
false
component2263762
1
BBa_Q04121
component2263743
1
BBa_J23100
annotation2263743
1
BBa_J23100
range2263743
1
1
35
annotation2263762
1
BBa_Q04121
range2263762
1
44
1414
BBa_J64609
1
creD RBS
creD RBS
Ryan Ritterson
2007-03-19T12:00:00Z
2015-05-08T01:08:17Z
false
false
_98_
0
1422
98
Not in stock
false
The ribosomal binding site of the creD gene in the E Coli creD operon.
natural sequence, no design.
E Coli Strain K12
false
BBa_J61142
1
BBa_J61142
{rbs1} Library Member in BBb
John Anderson
2007-09-03T11:00:00Z
2015-08-31T01:56:25Z
false
false
_95_
0
483
95
Not in stock
false
{{BBbRBS1Family}}
{{BerkiGEM2007-Biobrick2.0Intro}}
Synthetic
false
BBa_M13503
1
BBa_M13503
M13K07 gene III RBS
Natalie Kuldell
2006-12-14T12:00:00Z
2015-05-08T01:13:56Z
false
false
_45_
0
314
1
Not in stock
false
This RBS is part of the bacteriophage M13 genome, initiating translation of the gene III message (BBa_M13003). The part aligns with base pairs 1563-1578 in M13K07 genome. It was identified as the RBS for gene III message by Wezenbeek et al in Gene (1980) 11: 129-148
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban
none
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban
false
BBa_K1585100
1
BBa_K1585100
Anderson Promoter with lacI binding site
Tobias Schwanemann
2015-08-23T11:00:00Z
2015-08-26T11:28:17Z
false
false
_2002_
24474
24474
9
Not in stock
false
Promoters of the Anderson Promoter Collection with lacI binding site derived from [http://parts.igem.org/Part:BBa_R0010 R_0010] to make them [http://openwetware.org/wiki/IPTG IPTG] iducible.
The "lacI binding site" of Part [http://parts.igem.org/Part:BBa_R0010 R_0010] differs from lacO from Part [http://parts.igem.org/Part:BBa_J33207 BBa_J33207] although they should be same.
We choosed part BBa_R0010 because we assumed older parts would be reliable.
Assambly of [http://parts.igem.org/Part:BBa_J23100 J23100] and lacI-binding-site of [http://parts.igem.org/Part:BBa_R0010 R_0010]
false
component2436913
1
BBa_K1585999
component2436912
1
BBa_J23100
annotation2436913
1
BBa_K1585999
range2436913
1
44
78
annotation2436912
1
BBa_J23100
range2436912
1
1
35
BBa_K418000
1
CP1LacPI1
IPTG inducible Lac promoter cassette
Northwestern University iGEM 2010
2010-10-11T11:00:00Z
2015-05-08T01:12:28Z
false
true
_532_
0
6657
9
Not in stock
false
constituitive promoter + LacPI
blah
From assembly of kit parts.
false
component2263723
1
BBa_J23100
component2263742
1
BBa_Q01121
annotation2263742
1
BBa_Q01121
range2263742
1
44
1416
annotation2263723
1
BBa_J23100
range2263723
1
1
35
BBa_K1585116
1
BBa_K1585116
Anderson Promoter with lacI binding site
Tobias Schwanemann
2015-08-31T11:00:00Z
2015-09-01T02:19:47Z
false
false
_2002_
24474
24474
9
false
Promoters of the Anderson Promoter Collection with lacI binding site derived from [http://parts.igem.org/Part:BBa_R0010 R_0010] to make them [http://openwetware.org/wiki/IPTG IPTG] iducible.
We choosed lacI-binding-site of part BBa_R0010 because we assumed older parts would be more reliable.
The part is shipped in backbone [http://parts.igem.org/Part:BBa_J61002 J61002] because the functionality is directly visible by adding IPTG. RFP ([http://parts.igem.org/Part:BBa_E1010 E1010]) should get expressed then.
[[File:K15751xx design.png |600px]]
Assambly of [http://parts.igem.org/Part:BBa_J23103 J23103] and lacI-binding-site of [http://parts.igem.org/Part:BBa_R0010 R_0010]
The "lacI binding site" of Part [http://parts.igem.org/Part:BBa_R0010 R_0010] differs from lacO from Part [http://parts.igem.org/Part:BBa_J33207 BBa_J33207].
false
component2441710
1
BBa_K1585999
component2441708
1
BBa_J23116
annotation2441710
1
BBa_K1585999
range2441710
1
44
78
annotation2441708
1
BBa_J23116
range2441708
1
1
35
BBa_B0072
1
BBa_B0072
orthogonal RBS
Bartholomew Canton
2006-05-01T11:00:00Z
2015-08-31T04:07:21Z
false
false
_11_6_
0
135
6
Not in stock
false
-- No description --
false
BBa_K137087
1
BBa_K137087
optimized (TA) repeat constitutive promoter with 17 bp between -10 and -35 elements
Allen Lin
2008-08-20T11:00:00Z
2015-05-08T01:10:10Z
false
false
_187_
0
3112
9
Not in stock
false
optimized (TA) repeat constitutive promoter with 17 bp between -10 and -35 elements
None
PCR
false
BBa_J61110
1
BBa_J61110
Ribosome Binding Site Family Member
John Anderson
2007-04-23T11:00:00Z
2015-08-31T02:03:00Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_K823007
1
BBa_K823007
Anderson promoter J23103
Korinna Kraft
2012-09-07T11:00:00Z
2015-07-07T11:46:24Z
false
false
_1081_
4206
12081
9
Released HQ 2013
In stock
false
Anderson promoter J23103 without RFP in backbone vector pSB1C3 to easily fuse the promoter with other reporters e.g. the lux operon.
no considerations
Partsregistry
false
annotation2182515
1
J23103
range2182515
1
1
35
annotation2182517
1
-10 box
range2182517
1
24
29
annotation2182516
1
-35 box
range2182516
1
1
6
BBa_J23103
1
BBa_J23103
constitutive promoter family member
John Anderson
2006-08-03T11:00:00Z
2015-08-31T04:08:40Z
false
true
_52_
0
483
95
Released HQ 2013
In stock
true
replace later
N/A
isolated from library of promoters
true
BBa_K113010
1
BBa_K113010
overlapping T7 promoter
Wu Jingjing, Wang Jinyu
2008-10-25T11:00:00Z
2015-05-08T01:09:20Z
false
false
_254_
0
2711
9
It's complicated
false
Two T7 promoters are reversely overlapping.
It is difficult to make this short DNA by PCR as both sides are T7 promoters, which are very similar. It is highly possible that they form loops before they can be synthesized by PCR. Thus we order two single stranded DNA and then anneal them together by touchdown PCR.
The sequence of T7 promoter is TAATACGACTCACTATA.
false
annotation1989307
1
T7 promoter
range1989307
1
20
37
annotation1989277
1
T7 promoter
range1989277
1
4
21
BBa_K1585106
1
BBa_K1585106
Anderson Promoter with lacI binding site
Tobias Schwanemann
2015-08-31T11:00:00Z
2015-09-01T02:01:39Z
false
false
_2002_
24474
24474
9
false
Promoters of the Anderson Promoter Collection with lacI binding site derived from [http://parts.igem.org/Part:BBa_R0010 R_0010] to make them [http://openwetware.org/wiki/IPTG IPTG] iducible.
We choosed lacI-binding-site of part BBa_R0010 because we assumed older parts would be more reliable.
The part is shipped in backbone [http://parts.igem.org/Part:BBa_J61002 J61002] because the functionality is directly visible by adding IPTG. RFP ([http://parts.igem.org/Part:BBa_E1010 E1010]) should get expressed then.
[[File:K15751xx design.png |600px]]
Assambly of [http://parts.igem.org/Part:BBa_J23106 J23106] and lacI-binding-site of [http://parts.igem.org/Part:BBa_R0010 R_0010]
The "lacI binding site" of Part [http://parts.igem.org/Part:BBa_R0010 R_0010] differs from lacO from Part [http://parts.igem.org/Part:BBa_J33207 BBa_J33207].
false
component2441698
1
BBa_K1585999
component2441696
1
BBa_J23106
annotation2441698
1
BBa_K1585999
range2441698
1
44
78
annotation2441696
1
BBa_J23106
range2441696
1
1
35
BBa_J34803
1
BBa_J34803
ribosome binding site
Alexandra Choutko
2006-10-25T11:00:00Z
2015-08-31T04:08:46Z
false
false
_62_
0
1085
62
Released HQ 2013
In stock
false
a
a
a
false
BBa_J64031
1
BBa_J64031
sptP RBS
Dan Widmaier
2008-01-16T12:00:00Z
2015-08-31T01:56:26Z
false
false
_98_
0
2407
98
Not in stock
false
This is the natural RBS for the sptP gene in Salmonella Type III Secretion
This part was designed without consideration for biobrick standard assembly. This RBS has not been explicitly tested for expression rate.
Salmonella LT2 Genomic DNA
false
annotation1959635
1
sptP RBS
range1959635
1
1
20
BBa_K137085
1
BBa_K137085
optimized (TA) repeat constitutive promoter with 13 bp between -10 and -35 elements
Allen Lin
2008-08-20T11:00:00Z
2015-05-08T01:10:10Z
false
false
_187_
0
3112
9
Not in stock
false
optimized (TA) repeat constitutive promoter with 13 bp between -10 and -35 elements
None
PCR
false
BBa_B0029
1
BBa_B0029
1 bp deletion from B0031
Jason Kelly
2008-02-07T12:00:00Z
2015-08-31T04:07:20Z
false
false
_11_
0
2
84
Not in stock
false
.
.
.
false
BBa_I723012
1
BBa_I723012
Estimated RBS for DntR
Scott Ramsay
2007-10-24T11:00:00Z
2015-08-31T04:07:53Z
false
false
_126_
0
2140
9
Not in stock
false
This is the naturally-occurring RBS found in the regulatory region of the DntR gene.
'''''This does not physically exist as a basic part due to time constraints; it was cloned as part of composite part which incorporates all of the components necessary for expression of a reporter gene under the control of DntR'''''. For this reason, the ends of the supplied sequence may not accurately represent the boundaries of the functional unit.
Cloned from a historical plasmid based on pQF52 carrying genomic sequences from ''Burkholderia cepacia''.
false
annotation1954958
1
RBS for DntR
range1954958
1
1
24
BBa_J34810
1
BBa_J34810
ribosome binding site
Alexandra Choutko
2006-10-25T11:00:00Z
2015-08-31T04:08:47Z
false
false
_62_
0
1085
62
Not in stock
false
a
a
a
false
BBa_J61103
1
BBa_J61103
Ribosome Binding Site Family Member
John Anderson
2007-04-23T11:00:00Z
2015-08-31T02:03:00Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_J23105
1
BBa_J23105
constitutive promoter family member
John Anderson
2006-08-13T11:00:00Z
2015-08-31T04:08:40Z
false
true
_52_
0
483
95
In stock
true
Later
N/A
Isolated from library of promoters
true
BBa_K256002
1
BBa_K256002
J23101:GFP
iGEM09_NTU-Singapore
2009-10-15T11:00:00Z
2015-05-08T01:11:40Z
false
false
_359_
0
4864
9
It's complicated
true
GFP Reporter
--
--
false
component2056715
1
BBa_J23101
component2056720
1
BBa_B0010
component2056717
1
BBa_B0034
component2056722
1
BBa_B0012
component2056719
1
BBa_E0040
annotation2056720
1
BBa_B0010
range2056720
1
790
869
annotation2056722
1
BBa_B0012
range2056722
1
878
918
annotation2056715
1
BBa_J23101
range2056715
1
1
35
annotation2056719
1
BBa_E0040
range2056719
1
62
781
annotation2056717
1
BBa_B0034
range2056717
1
44
55
BBa_K137030
1
BBa_K137030
constitutive promoter with (TA)9 between -10 and -35 elements
Allen Lin
2008-07-20T11:00:00Z
2015-05-08T01:10:09Z
false
false
_187_
0
3112
9
It's complicated
false
constitutive promoter with (TA)9 between -10 and -35 elements
With 9 TA repeats between the -10 and -35 elements, the distance between the two elements is not optimal for the sigma factor to bind to the promoter. Thus, the promoter should be in the 'off' state.
This part was PCR amplified from two synthesized primers that bound to each other.
false
annotation1967766
1
-10 element
range1967766
1
21
25
annotation1967767
1
TA repeat
range1967767
1
7
20
BBa_K777000
1
BBa_K777000
Tar receptor
Bianca Genenncher
2012-09-10T11:00:00Z
2015-05-08T01:13:16Z
false
false
_1029_
0
11946
9
In stock
It's complicated
false
The transmembrane receptor Tar of <i>E. coli</i> mediates chemotaxis towards aspartate.
One XbaI site was found at position 420. The restriction site was changed from TCTAGt to CCTAGt via QuikChange PCR.
The part was amplified from genomic DNA of <i>E. coli</i> str. K-12 substr. DH10B chromosome (NC_010473.1).
false
annotation2182659
1
ATG
range2182659
1
1
3
annotation2182661
1
TGA
range2182661
1
1660
1662
annotation2182660
1
Tar coding region
range2182660
1
1
1662
BBa_K112707
1
BBa_K112707
Pspv from <I>Salmonella</I>
Bing Xia
2008-10-20T11:00:00Z
2015-05-08T01:09:18Z
false
false
_224_
0
2998
9
Not in stock
false
The spv promoter.
----
This part is in BBb Format. It is flanked by BamHI and BglII sites instead of XbaI and SpeI. More information about the BBb Format is available at:<br>
[http://openwetware.org/wiki/Template:AndersonLab:BBb_Standard BBb Standard Description Page]
<pre>
Construction of <Pspv> basic part K112707
PCR of dv017/dv016 on pBca1037 (499bp, EcoRI/BamHI/DpnI)
Sub into pBca1256 (EcoRI/BamHI, 2472+499, L)
Product is pBca1256-K112707
-----------------------------------------------
dv017 Forward biobricking of <Pspv>
cgataGAATTCatgAGATCTaGATCCTGTGATGTTTGGCG
dv016 Reverse biobricking of <Pspv>
cgttaGGATCCGATAATGTtTGCAGGGGAATTATTTTG
</pre>
false
BBa_K1585103
1
BBa_K1585103
Anderson Promoter with lacI binding site
Tobias Schwanemann
2015-08-31T11:00:00Z
2015-09-01T03:08:18Z
false
false
_2002_
24474
24474
9
false
Promoters of the Anderson Promoter Collection with lacI binding site derived from [http://parts.igem.org/Part:BBa_R0010 R_0010] to make them [http://openwetware.org/wiki/IPTG IPTG] iducible.
We choosed lacI-binding-site of part BBa_R0010 because we assumed older parts would be more reliable.
The part is shipped in backbone [http://parts.igem.org/Part:BBa_J61002 J61002] because the functionality is directly visible by adding IPTG. RFP ([http://parts.igem.org/Part:BBa_E1010 E1010]) should get expressed then.
[[File:K15751xx design.png |600px]]
Assambly of [http://parts.igem.org/Part:BBa_J23103 J23103] and lacI-binding-site of [http://parts.igem.org/Part:BBa_R0010 R_0010]
The "lacI binding site" of Part [http://parts.igem.org/Part:BBa_R0010 R_0010] differs from lacO from Part [http://parts.igem.org/Part:BBa_J33207 BBa_J33207].
false
component2441413
1
BBa_K1585999
component2441411
1
BBa_J23103
annotation2441411
1
BBa_J23103
range2441411
1
1
35
annotation2441413
1
BBa_K1585999
range2441413
1
44
78
BBa_K1895003
1
BBa_K1895003
htpG Promoter
iGEM16_Newcastle
2016-09-05T11:00:00Z
2016-09-06T04:50:25Z
false
false
_2361_
29859
29859
9
false
This is the promoter for molecular chaperone htpG. It is active during the heat shock response.
[TODO]
This is a correction to part [http://parts.igem.org/Part:BBa_J45504 BBa_J45504], also the htpG Heat Shock Promoter. The original part contains a fragment of the coding sequence for molecular chaperone htpG (base pairs >287) which can be confirmed by [http://blast.ncbi.nlm.nih.gov/ BLASTing the sequence]. This part contains only the first 287 bases of the original part which consist solely of the htpG promoter.
You can see the difference between the two sequences in the image below.
[[File:T--Newcastle--htpG-Seq-Comparison.png]]
false
BBa_K143011
1
PgsiB
Promoter gsiB for B. subtilis
James Chappell
2008-09-10T11:00:00Z
2015-05-08T01:10:23Z
false
false
_199_
0
2090
9
Not in stock
false
Promoter gsiB is a sigma factor B dependent promoter found in ''B.subtilis''. In ''B.subtilis'' endogenous sigma factor B is activated under mild stress. These mild stress conditions can be generally split into nutrient stress response and physical stress response. Nutrient stress response is triggered by low levels of ATP and GTP and physical stress response is triggered by exposure to blue light, salt, heat, acid or ethanol<cite>1</cite>. The promoter gsiB has been used previously as a read out for the activation of sigma factor B <cite>2</cite>. The context with which we used the promoter gsiB, was to take blue light as an input and give '''Polymerase Per Second'''(PoPS) as an output. To do this the other potential inputs need to be carefully controlled so that only blue light activated the sigma B and gives a PoPS output. In order to get sufficient sigma B activation by blue light the light receptor YtvA, part...., needs to be over expressed in ''B.subtilis'' <cite>3</cite>.
Biobrick standard was applied to the promoter gsiB sequence.
The part was designed using the sequence from the ''B.subtilis'' genome and from previously published papers <cite>2</cite><cite>3</cite>. This sequence was then synthesised by Geneart.
false
annotation1975702
1
Sigma B -35
range1975702
1
6
11
annotation1975703
1
Sigma B -10
range1975703
1
25
30
BBa_K1585105
1
BBa_K1585105
Anderson Promoter with lacI binding site
Tobias Schwanemann
2015-08-31T11:00:00Z
2015-09-01T02:03:04Z
false
false
_2002_
24474
24474
9
false
Promoters of the Anderson Promoter Collection with lacI binding site derived from [http://parts.igem.org/Part:BBa_R0010 R_0010] to make them [http://openwetware.org/wiki/IPTG IPTG] iducible.
We choosed lacI-binding-site of part BBa_R0010 because we assumed older parts would be more reliable.
The part is shipped in backbone [http://parts.igem.org/Part:BBa_J61002 J61002] because the functionality is directly visible by adding IPTG. RFP ([http://parts.igem.org/Part:BBa_E1010 E1010]) should get expressed then.
[[File:K15751xx design.png |600px]]
Assambly of [http://parts.igem.org/Part:BBa_J23103 J23103] and lacI-binding-site of [http://parts.igem.org/Part:BBa_R0010 R_0010]
The "lacI binding site" of Part [http://parts.igem.org/Part:BBa_R0010 R_0010] differs from lacO from Part [http://parts.igem.org/Part:BBa_J33207 BBa_J33207].
false
component2441414
1
BBa_J23105
component2441416
1
BBa_K1585999
annotation2441416
1
BBa_K1585999
range2441416
1
44
78
annotation2441414
1
BBa_J23105
range2441414
1
1
35
BBa_Z0261
1
BBa_Z0261
Strong T7.2 RBS
Sriram Kosuri
2006-05-15T11:00:00Z
2015-05-08T01:14:55Z
false
false
_11_10_
0
64
10
Not in stock
false
Sequence comes from the natural gene 5 RBS. Using gene 5 as a strong RBS is from initial results from experiments characterizing all natural T7 RBSs.
false
BBa_K823002
1
BBa_K823002
P<sub>lepA</sub>
Korinna Kraft
2012-07-15T11:00:00Z
2015-05-08T01:13:29Z
false
false
_1081_
0
12081
9
Released HQ 2013
In stock
false
PlepA is the promoter of the PlepA gene of Bacillus subtilis. It is a constitutive promoter and does not contain a ribosome binding site.
no considerations
Bacillus subtilis
false
BBa_J64807
1
BBa_J64807
RocD RBS
David Stanley
2007-03-19T12:00:00Z
2015-05-08T01:08:17Z
false
false
_98_
0
1423
98
Not in stock
false
RocD RBS
none
none
false
BBa_I14034
1
Kat
P(Kat)
Vikram Vijayan, Allen Hsu, Lawrence Fomundam
2004-08-03T11:00:00Z
2015-08-31T04:07:38Z
false
false
_4_
0
171
7
Released HQ 2013
In stock
false
Constitutive Promoter, Medium Transcription
nnpp promoter 3 from pSB2K3
true
annotation1023116
1
P(Kat)
range1023116
1
1
45
BBa_J61143
1
BBa_J61143
{rbs1} Library Member in BBb
John Anderson
2007-09-03T11:00:00Z
2015-08-31T01:56:25Z
false
false
_95_
0
483
95
Not in stock
false
{{BBbRBS1Family}}
{{BerkiGEM2007-Biobrick2.0Intro}}
Synthetic
false
BBa_B0033
1
BBa_B0033
RBS.4 (weaker) -- derivative of BBa_0030
Vinay S Mahajan, Voichita D. Marinescu, Brian Chow, Alexander D Wissner-Gross and Peter Carr IAP, 2003.
2003-01-31T12:00:00Z
2015-08-31T04:07:20Z
false
true
_41_44_48_46_1_
0
24
7
Released HQ 2013
In stock
false
Weaker RBS based on Ron Weiss thesis. Strengths relative to <bb_part>BBa_B0030</bb_part>, <bb_part>BBa_B0031</bb_part>, <bb_part>BBa_B0032</bb_part>.
Varies from -6 to +1 region from original sequence to accomodate BioBricks suffix ("RBS-3" in figure 4-14 of thesis). <p>No secondary structures are formed in the given RBS region. Users should check for secondary structures induced in the RBS by upstream and downstream elements in the +50 to -50 region, as such structures will greatly affect the strength of the RBS.
Contact info for this part: <a href="mailto:(bchow@media.mit.edu)">Brian Chow</a>
true
annotation1714
1
RBS
range1714
1
7
10
annotation1713
1
RBS-4\Weaker
range1713
1
1
11
annotation7028
1
BBa_B0033
range7028
1
1
11
BBa_K823005
1
BBa_K823005
Anderson promoter J23101
Korinna Kraft
2012-09-07T11:00:00Z
2015-07-07T11:44:25Z
false
false
_1081_
4206
12081
9
Released HQ 2013
In stock
false
Anderson promoter J23101 without RFP in backbone vector pSB1C3 to easily fuse the promoter with other reporters e.g. the lux operon.
no considerations
Partsregistry
false
annotation2182510
1
-35 box
range2182510
1
1
6
annotation2182511
1
-10 box
range2182511
1
24
29
annotation2182509
1
J23101
range2182509
1
1
35
BBa_K382034
1
BBa_K382034
Act2pLacO (Actin promoter + 2x LacO)
Mara C. Inniss
2010-10-25T11:00:00Z
2015-06-11T01:09:19Z
false
false
_488_
4206
7454
9
It's complicated
false
A constitutive plant actin promoter followed by two copies of the Lac operator. This allows control of promoter activity by LacI.
Conforms to biobrick standard 21
synthesized by mr.gene
false
BBa_J61111
1
BBa_J61111
Ribosome Binding Site Family Member
John Anderson
2007-04-23T11:00:00Z
2015-08-31T02:03:00Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_K1467104
1
BBa_K1467104
GoldenGate compatible MAS promoter
Cara Deal
2014-09-23T11:00:00Z
2015-05-29T01:22:30Z
false
false
_1846_
4206
21550
9
In stock
false
MAS is a plant specific promoter which is constitutively expressed.
This part is compatible with the GoldenGate MoClo Assembly Standard as it is free from BsaI and BpiI recognition sequences.
Domestication for GoldenGate by removal of BsaI and BpiI recognition sequences.
Agrobacterium tumefaciens
false
BBa_K823013
1
BBa_K823013
Anderson promoter J23117
Korinna Kraft
2012-09-07T11:00:00Z
2015-07-07T11:51:22Z
false
false
_1081_
4206
12081
9
Released HQ 2013
In stock
false
Anderson promoter J23117 without RFP in backbone vector pSB1C3 to easily fuse the promoter with other reporters e.g. the lux operon.
no considerations
Partsregistry
false
annotation2182545
1
-10 box
range2182545
1
24
29
annotation2182544
1
-35 box
range2182544
1
1
6
annotation2182543
1
J23117
range2182543
1
1
35
BBa_J48104
1
BBa_J48104
NikR promoter, a protein of the ribbon helix-helix family of trancription factors that repress expre
Laina Magaya
2006-10-30T12:00:00Z
2015-08-31T04:08:51Z
false
false
_73_
0
969
73
Not in stock
false
Nickel responsive transcriptional regulator
Cut with Pst I and Xba I
Escherichia coli UTI89
false
BBa_J23080
1
BBa_J23080
b0034 derived RBS to match spacing of J01122
bryan hernandez
2006-09-20T11:00:00Z
2015-08-31T04:08:40Z
false
false
_52_
0
936
52
In stock
false
RBS spacing modification to [RBS] such that the spacing between the shine-delgarno and the ORF is the same as it is in J01122.
none
j01122
false
BBa_K1824896
1
BBa_K1824896
J23100 + RBS
Xinhao Wang
2015-09-10T11:00:00Z
2015-09-11T09:57:14Z
false
false
_2250_
26000
26000
9
false
Constitutive promoter J23100 plus RBS.
no special concern
Parts J23100 through J23119 are a family of constitutive promoter parts isolated from a small combinatorial library. B0030 is a strong RBS based on Ron Weiss thesis
false
component2452340
1
BBa_J23100
component2452343
1
BBa_B0030
component2452341
1
BBa_K1824889
component2452345
1
BBa_K1824890
annotation2452345
1
BBa_K1824890
range2452345
1
83
88
annotation2452343
1
BBa_B0030
range2452343
1
60
74
annotation2452340
1
BBa_J23100
range2452340
1
1
35
annotation2452341
1
BBa_K1824889
range2452341
1
44
51
BBa_M13103
1
BBa_M13103
M13K07 gene III promoter
Natalie Kuldell
2006-12-15T12:00:00Z
2015-05-08T01:13:55Z
false
true
_45_
0
314
1
Not in stock
false
This part is from the bacteriophage M13 genome, bp 1500-1547 in M13K07. It directs transcription of M13 gene III (BBa_M13503, BBa_M13003). Its identity as a promoter was described in Gene (1980) 11:129-148 based on -10,-35 homology and fragment of genome able to bind RNAP.
none
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban.
false
BBa_K1468002
1
BBa_K1468002
pJ23110 + gene encoding ZsGreen
Pedro Luis Dorado Morales
2014-10-02T11:00:00Z
2015-05-08T01:10:38Z
false
false
_1847_
0
11756
9
It's complicated
false
-
-
-
false
BBa_K823006
1
BBa_K823006
Anderson promoter J23102
Korinna Kraft
2012-09-07T11:00:00Z
2015-07-07T11:45:05Z
false
false
_1081_
4206
12081
9
Released HQ 2013
In stock
false
Anderson promoter J23102 without RFP in backbone vector pSB1C3 to easily fuse the promoter with other reporters e.g. the lux operon.
no considerations
Partsregistry
false
annotation2182513
1
-35 box
range2182513
1
1
6
annotation2182512
1
J23102
range2182512
1
1
35
annotation2182514
1
-10 box
range2182514
1
24
29
BBa_J61135
1
BBa_J61135
Ribosome Binding Site Family Member
John Anderson
2007-04-24T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
It's complicated
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_I742146
1
BBa_I742146
sam8 native rbs
Chris French
2007-10-23T11:00:00Z
2015-08-31T04:08:03Z
false
false
_123_
0
837
163
Not in stock
false
Native ribosome binding site of sam8 (tyrosine ammonia lyase) from the bacterium Saccharothrix espanaensis DSM 44229.
Virtual part to be added to coding sequence I742142.
Saccharothrix espanaensis DSM 44229.
false
BBa_K777108
1
BBa_K777108
flhDC operon under the control of constitutive promoter J23114
Team Goettingen
2012-09-18T11:00:00Z
2015-05-08T01:13:16Z
false
false
_1029_
0
12106
9
In stock
false
[[Image:Table_K777101-K777108_new.jpg|thumb|240px|right|'''Fig. 1:''' Overview of BioBricks containing the ''flhDC'' operon downstream of Anderson promoters. (Activity according to Berkeley 2006)]]
The ''flhDC'' operon is the master regulator of motility and chemotaxis in ''E. coli''. FlhDC forms heterotetramers and activates class II operons in concert with sigma factor 70. Among the gene products of class II operons are several components of the flagellum and the alternative sigma factor FliA which is essential for the transcription of class III genes.
<br>Here we used a set of 8 constitutive Anderson-promoters from the 2006 Berkeley group to test how different levels of constitutive ''flhDC'' expression affect the motility of ''E. coli''.
*The PstI restriction site in the ''flhDC'' sequence was mutated to CTGCGG using the reverse primer.
*''flhDC'' was amplified from genomic DNA of ''E. coli'' DH10B via PCR using the following primers:
**Fwd: 5'-actgaattcgcggccgcttctagatgcatacctccgagttgctg-3'
**Rev: 5'-tcctgcagcggccgctactagttactgcccgggatggcggttgacataagcCgcaggcaaagctgccaacag-3' <br> (the capitalized "C" induces the mutation for removal of the PstI site)
*The part was amplified from genomic DNA of ''E. coli'' str. K-12 substr. DH10B, complete genome (CP000948.1).
*J23100 information was taken from the partsregistry and physical DNA from the 2012 distribution kit.
false
component2187126
1
BBa_K777100
component2187118
1
BBa_J23114
annotation2187118
1
BBa_J23114
range2187118
1
1
35
annotation2187126
1
BBa_K777100
range2187126
1
42
910
BBa_J64015
1
BBa_J64015
sopA RBS
Dan Widmaier
2008-01-16T12:00:00Z
2015-08-31T01:56:26Z
false
false
_98_
0
2407
98
Not in stock
false
This is the natural RBS associated with the sopA effector protein in the Salmonella SPI-1 system.
This part was not designed with compliance to biobrick standard assembly in mind. This RBS hasn't been explicitly tested in an expression assay such as GFP fluorescence or B-Gal expression.
Salmonella LT2 Genomic DNA
false
annotation1959614
1
sopA RBS
range1959614
1
1
16
BBa_J64951
1
CreAp
E. Coli CreABCD phosphate sensing operon promoter
reid williams
2007-03-19T12:00:00Z
2015-05-08T01:08:17Z
false
false
_98_
0
1432
98
Not in stock
false
CreABCD phosphate sensing operon promoter taken from RegulonDB.
none
E. Coli K12
false
BBa_K823011
1
BBa_K823011
Anderson promoter J23114
Korinna Kraft
2012-09-07T11:00:00Z
2015-07-07T11:50:55Z
false
false
_1081_
4206
12081
9
Released HQ 2013
In stock
false
Anderson promoter J23114 without RFP in backbone vector pSB1C3 to easily fuse the promoter with other reporters e.g. the lux operon.
no considerations
Partsregistry
false
annotation2182538
1
-35 box
range2182538
1
1
6
annotation2182539
1
-10 box
range2182539
1
24
29
annotation2182537
1
J23114
range2182537
1
1
35
BBa_B2102
1
BBa_B2102
T7 RBS 0.4 + SapI (rev)
Heather Keller
2006-09-27T11:00:00Z
2015-08-31T04:07:21Z
false
false
_11_
0
571
10
Not in stock
false
Insert Text here
Insert Text here
Insert Text here
false
annotation1902500
1
SD region
range1902500
1
4
10
annotation1902499
1
BBa_B2002
range1902499
1
1
20
annotation1902501
1
BBa_B0079
range1902501
1
21
32
annotation1902502
1
SapI
range1902502
1
25
31
BBa_Z0262
1
BBa_Z0262
Medium strength T7.2 RBS
Sriram Kosuri
2006-05-15T11:00:00Z
2015-05-08T01:14:55Z
false
false
_11_10_
0
64
10
Not in stock
false
Sequence comes from the natural B0030. Using B0030 as a medium strength RBS is from initial results from experiments characterizing all natural T7 RBSs.
false
BBa_J61141
1
BBa_J61141
{rbs1} Library Member in BBb
John Anderson
2007-09-03T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
Not in stock
false
{{BBbRBS1Family}}
{{BerkiGEM2007-Biobrick2.0Intro}}
Synthetic
false
BBa_K1484214
1
BBa_K1484214
MpEF1a (Marchantia poylmorpha Elongation Factor 1, PlantSyntax Pro+5U)
Salil Bhate
2014-10-07T11:00:00Z
2015-06-10T02:07:44Z
false
false
_1864_
4206
21057
9
Not in stock
false
Mp Elongation Factor 1 Promoter + 5U
5UTR
MP Genome
false
annotation2414230
1
PlantSyntax Pro+5U
range2414230
1
1
11
annotation2414232
1
PlantSyntax Pro+5U
range2414232
1
1745
1756
BBa_J23113
1
BBa_J23113
constitutive promoter family member
John Anderson
2006-08-16T11:00:00Z
2015-08-31T04:08:40Z
false
true
_52_
0
483
95
Released HQ 2013
In stock
true
Later
N/A
Later
true
BBa_M13510
1
BBa_M13510
M13KO7 gene X RBS
Natalie Kuldell
2006-12-14T12:00:00Z
2015-05-08T01:13:56Z
false
false
_45_
0
314
1
Not in stock
false
This RBS is part of the bacteriophage M13 genome, initiating translation of the gene X message (BBa_M13010). The part aligns with base pairs 480-495 in M13K07 genome. It was identified as the RBS for gene II message by Wezenbeek et al in Gene (1980) 11: 129-148
none
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban
false
BBa_J34801
1
BBa_J34801
ribosome binding site
Alexandra Choutko
2006-10-25T11:00:00Z
2015-08-31T04:08:46Z
false
false
_62_
0
1085
62
Released HQ 2013
In stock
false
a
a
a
false
BBa_K1362090
1
T7 RBS
strong T7 RBS
Constantin Ahlmann-Eltze, Charlotte Bunne, Magdalena B??scher, Jan Gleixner, Max Horn, Anna Huhn, Nils Klughammer, Jakob Kreft, Elisabeth Sch??fer, Carolin Schmelas, Silvan Schmitz, Max Waldha
2014-10-02T11:00:00Z
2015-05-08T01:10:04Z
false
false
_1738_
0
22830
9
It's complicated
false
RFC10 compatible strong RBS derived from the T7 phage gene 10a (major capsid protein)[1]. When assembled to a coding part with the A of the start codon being part of the XbaI site, the RBS will be shifted one bp downstream compared to the native sequence.
The sequence was successfully used by the iGEM team Heidelberg 2014 for the expression of many proteins in E.coli.
1. Olinss, P. & Rangwala, S. H. Derived from Bacteriophage T7 mRNA Acts ELS an Enhancer of Translation of the lac2 Gene in. 16973???16976 (1989).
The 18 bp including the XbaI that can be found upstream of the presumably important part of the RBS were included into the sequence just to make sure it works. However to fully comply with RFC10 a G was inserted behind the XbaI site.
synthesized as found in the T7 genome and several commercial expression plasmids.
false
annotation2393795
1
t7 RBS
range2393795
1
11
28
annotation2393796
1
Shine-Dalgarno
range2393796
1
21
28
BBa_J61139
1
BBa_J61139
Ribosome Binding Site Family Member
John Anderson
2007-04-24T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_K1585115
1
BBa_K1585115
Anderson Promoter with lacI binding site
Tobias Schwanemann
2015-08-31T11:00:00Z
2015-09-01T02:13:08Z
false
false
_2002_
24474
24474
9
false
Promoters of the Anderson Promoter Collection with lacI binding site derived from [http://parts.igem.org/Part:BBa_R0010 R_0010] to make them [http://openwetware.org/wiki/IPTG IPTG] iducible.
We choosed lacI-binding-site of part BBa_R0010 because we assumed older parts would be more reliable.
The part is shipped in backbone [http://parts.igem.org/Part:BBa_J61002 J61002] because the functionality is directly visible by adding IPTG. RFP ([http://parts.igem.org/Part:BBa_E1010 E1010]) should get expressed then.
[[File:K15751xx design.png |600px]]
Assambly of [http://parts.igem.org/Part:BBa_J23110 J23110] and lacI-binding-site of [http://parts.igem.org/Part:BBa_R0010 R_0010]
The "lacI binding site" of Part [http://parts.igem.org/Part:BBa_R0010 R_0010] differs from lacO from Part [http://parts.igem.org/Part:BBa_J33207 BBa_J33207].
false
component2441705
1
BBa_J23115
component2441707
1
BBa_K1585999
annotation2441705
1
BBa_J23115
range2441705
1
1
35
annotation2441707
1
BBa_K1585999
range2441707
1
44
78
BBa_I742159
1
BBa_I742159
crtI native rbs
Chris French
2007-10-23T11:00:00Z
2015-08-31T04:08:03Z
false
false
_123_
0
837
163
Not in stock
false
Native rbs from crtI (phytoene dehydrogenase) of Pantoea ananatis (formerly Erwinia uredovora) DSMZ 30080 (ATCC 19321). Accession: D90087.
Virtual part to be added to the coding sequence.
Pantoea ananatis (formerly Erwinia uredovora) DSMZ 30080 (ATCC 19321). Accession: D90087.
false
annotation1953816
1
rbs
range1953816
1
10
15
BBa_J45993
1
p(osmY)
Minimal stationary phase osmY promoter
Stephen Payne
2006-07-10T11:00:00Z
2015-08-31T04:08:50Z
false
false
_84_
0
642
84
Not in stock
true
osmY's promoter is active in stationary phase and under high osmotic pressure conditions.
Truncated Forward Primer: 5'- GTT TCT TCG AAT TCG CGG CCG CTT CTA GGCT TAT GTT TTC GCT GAT ATC - 3'
Total Length: 49 bp
Annealing Length: 21 bp
GC Content: 38.1%
Melting Temperature: 49.5 degrees C
hairpin deltaG: -2.66 kcal/mol
self dimer deltaG: -99.97 kcal/mol
Reverse Primer: 5'-GTT TCT TCC TGC AGC GGC CGC TAC TAG TAT TGT TAA ATA TAG ATC ACA ATT TTG- 3'
Total Length: 54 bp
Annealing Length: 25 bp
GC Content: 20.0%
Melting Temperature: 46.4 degrees C
hairpin deltaG: -2.86 kcal/mol
self dimer deltaG: -99.44 kcal/mol
heterodimer deltaG with Conserved Forward Primer: -99.97 kcal/mol
This part was PCRed out of E. coli's genome.
false
annotation1883648
1
-35
range1883648
1
22
27
annotation1883647
1
-10
range1883647
1
46
51
BBa_K823004
1
BBa_K823004
Anderson promoter J23100
Korinna Kraft
2012-09-07T11:00:00Z
2015-07-07T11:43:33Z
false
false
_1081_
4206
12081
9
Released HQ 2013
In stock
false
Anderson promoter J23100 without RFP in backbone vector pSB1C3 to easily fuse the promoter with other reporters e.g. the lux operon.
no considerations
Partsregistry
false
annotation2182508
1
-10 box
range2182508
1
24
29
annotation2182507
1
-35 box
range2182507
1
1
6
annotation2182506
1
J23100
range2182506
1
1
35
BBa_J61105
1
BBa_J61105
Ribosome Binding Site Family Member
John Anderson
2007-04-23T11:00:00Z
2015-08-31T02:03:00Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_B0076
1
BBa_B0076
Specialized RBS
Bartholomew Canton
2006-05-01T11:00:00Z
2015-08-31T04:07:21Z
false
false
_11_6_
0
135
6
Not in stock
false
-- No description --
false
BBa_K283012
1
BBa_K283012
pT7-rbs
W Ling , Shi Lei, Nelson Chu
2009-10-12T11:00:00Z
2015-05-08T01:11:47Z
false
false
_383_
0
5494
9
It's complicated
false
pT7 promoter with a rbs
BBa_K283012
From the registry
false
component2035622
1
BBa_I712074
component2035624
1
BBa_B0034
annotation2035624
1
BBa_B0034
range2035624
1
55
66
annotation2035622
1
BBa_I712074
range2035622
1
1
46
BBa_J23106
1
BBa_J23106
constitutive promoter family member
John Anderson
2006-08-13T11:00:00Z
2015-08-31T04:08:40Z
false
true
_52_
0
483
95
Released HQ 2013
In stock
true
Later
N/A
Isolated from library of promoters
true
BBa_K090506
1
BBa_K090506
''Bacillus subtilis'' weak RBS
Daniel Goodman
2008-10-27T12:00:00Z
2015-05-08T01:08:37Z
false
false
_188_
0
3501
9
Not in stock
false
This is the weak version of the consensus RBS for Bacillus subtilis. The sequence is present in front of some B. subtilis operons, but is expected to give weaker expression than the consensus sequence.
The consensus sequence AAAGGAGG (BBa_K090505) was changed to AGAGGTGG for this part.
The part must be 8 nucleotides away from the first methionine of the coding sequence, and so we added 'TGT' downstream of the actual binding sequence: AGAGGTGG. This, combined with the truncated non-CDS BioBrick prefix scar, gives exactly 8 'spacer bases' between the 3' end of the RBS and the start of the coding sequence.
This part was synthesized directly.
false
annotation1992815
1
B. subtilis weak RBS
range1992815
1
1
8
BBa_K777106
1
BBa_K777106
flhDC operon under the control of constitutive promoter J23112
Team Goettingen
2012-09-18T11:00:00Z
2015-05-08T01:13:16Z
false
false
_1029_
0
12106
9
In stock
false
[[Image:Table_K777101-K777108_new.jpg|thumb|240px|right|'''Fig. 1:''' Overview of BioBricks containing the ''flhDC'' operon downstream of Anderson promoters. (Activity according to Berkeley 2006)]]
The ''flhDC'' operon is the master regulator of motility and chemotaxis in ''E. coli''. FlhDC forms heterotetramers and activates class II operons in concert with sigma factor 70. Among the gene products of class II operons are several components of the flagellum and the alternative sigma factor FliA which is essential for the transcription of class III genes.
<br>Here we used a set of 8 constitutive Anderson-promoters from the 2006 Berkeley group to test how different levels of constitutive ''flhDC'' expression affect the motility of ''E. coli''.
*The PstI restriction site in the ''flhDC'' sequence was mutated to CTGCGG using the reverse primer.
*''flhDC'' was amplified from genomic DNA of ''E. coli'' DH10B via PCR using the following primers:
**Fwd: 5'-actgaattcgcggccgcttctagatgcatacctccgagttgctg-3'
**Rev: 5'-tcctgcagcggccgctactagttactgcccgggatggcggttgacataagcCgcaggcaaagctgccaacag-3' <br>(the capitalized "C" induces the mutation for removal of the PstI site)
*The part was amplified from genomic DNA of ''E. coli'' str. K-12 substr. DH10B, complete genome (CP000948.1).
*J23112 information was taken from the partsregistry and physical DNA from the 2012 distribution kit.
false
component2187094
1
BBa_K777100
component2187086
1
BBa_J23112
annotation2187094
1
BBa_K777100
range2187094
1
42
910
annotation2187086
1
BBa_J23112
range2187086
1
1
35
BBa_J61129
1
BBa_J61129
Ribosome Binding Site Family Member
John Anderson
2007-04-24T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_J61113
1
BBa_J61113
Ribosome Binding Site Family Member
John Anderson
2007-04-23T11:00:00Z
2015-08-31T02:03:00Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_B2017
1
BBa_B2017
2.8 RBS from T7
Bartholomew Canton
2007-05-22T11:00:00Z
2015-08-31T04:07:21Z
false
false
_11_
0
135
84
Not in stock
false
to be added automatically later
to be added automatically later
to be added automatically later
false
BBa_R1075
1
const.
Constitutive Promoter II
Chris Walsh (Fighting Darwins)
2004-01-27T12:00:00Z
2015-05-08T01:14:15Z
false
false
_1_
0
24
7
Not in stock
false
constitutive promoter which outputs .4 TIPs
point mutants of wild type rrnB promoter P1
Gaal, Gourse, et al.
false
annotation309024
1
-35
range309024
1
15
20
annotation309020
1
-10
range309020
1
35
40
BBa_K118012
1
BBa_K118012
Synthetic ribosome binding site added by Son of Babel procedure
Andrew Hall
2008-08-18T11:00:00Z
2015-05-08T01:09:36Z
false
false
_192_
0
3282
9
Not in stock
false
This is a 4bp synthetic ribosome binding site which can be added by fusion PCR using a reverse primer and the Son of Babel cloning system.
The part can be added by fusion PCR using a Son of Babel reverse primer.
Synthetic DNA
false
BBa_K124002
1
BBa_K124002
Yeast GPD (TDH3) Promoter
John Szymanski
2008-06-30T11:00:00Z
2015-05-08T01:09:44Z
false
false
_221_
0
2512
58
Not in stock
false
Regulatory region spanning 680 bp upstream of the start codon of the GPD1 gene in yeast. Very strong constitutive promoter.
none
Mumberg, Muller, and Funk. p413 pGPD
http://dx.doi.org/10.1016/0378-1119(95)00037-7
false
BBa_J63003
1
Kozak & st
designed yeast Kozak sequence
Caroline Ajo-Franklin
2006-10-10T11:00:00Z
2015-08-31T01:56:26Z
false
false
_97_
0
545
97
Released HQ 2013
In stock
false
consensus Kozak sequence and start codon
designed such that fusion using fusion bricks assembly method leads to in frame translation
consensus Kozak and start built from oligonucleotides
true
annotation1902852
1
start codon
range1902852
1
13
15
BBa_Z0253
1
BBa_Z0253
T7 weak binding promoter
Sriram Kosuri
2006-05-15T11:00:00Z
2015-05-08T01:14:55Z
false
false
_11_10_
0
64
10
Not in stock
false
-- No description --
false
annotation1862691
1
ag->GA from concensus
range1862691
1
31
32
annotation1862684
1
ag->TA from concensus
range1862684
1
27
28
BBa_K823008
1
BBa_K823008
Anderson promoter J23106
Korinna Kraft
2012-09-07T11:00:00Z
2015-07-07T11:47:05Z
false
false
_1081_
4206
12081
9
Released HQ 2013
In stock
false
Anderson promoter J23106 without RFP in backbone vector pSB1C3 to easily fuse the promoter with other reporters e.g. the lux operon.
no considerations
Partsregistry
false
annotation2182529
1
-10 box
range2182529
1
24
29
annotation2182530
1
J23106
range2182530
1
1
35
annotation2182528
1
-35 box
range2182528
1
1
6
BBa_K1796001
1
Pnif
promoter of Paenibacillus sp. WLY78 nif gene cluster
Nannan Xie
2015-09-16T11:00:00Z
2015-09-18T02:35:42Z
false
false
_2221_
12637
23592
9
false
The promoter of Paenibacillus sp. WLY78 nif gene cluster, We named it Pnif. Pnif is a σ70-dependent promoter located upstream of nifB. Pnif is in control of all the gene clusters of nitrogen fixation genome.
Confirmation of nif promoter
We standardized the nif promoter of Paenibacillus sp. WLY78, and linked it to the upstream of 3 reporter genes (RFP reporter: BBa_K1357010, YFP reporter: BBa_E0430;amilCP reporter: BBa_K1357009) to confirm the reliability of this promoter. The results are shown in Figure 2.
A B C
http://2015.igem.org/wiki/images/b/b2/Confirmation_of_Pnif_AB.png
http://2015.igem.org/wiki/images/thumb/3/34/C-confirmation_of_Pnif.jpeg/622px-C-confirmation_of_Pnif.jpeg
Fig.4. Confirmation of nif promoter of Paenibacillus sp. WLY78. (A) Pnif+RFP reporter; (B) Pnif+YFP reporter;(C)Pnif+amilCP reporter.
The results confirmed the reliability of Pnif. The initiation of Pnif does not require inducement. Thus it is a effective constitutive promoter.
effeciency of the promoter in E.coli for ordinary parts
Pnif is from Paenibacillus sp. WLY78 genome,located upstream of nifB,the first gene of nitrogen fixation cluster.
false
annotation2473661
1
Pnif
range2473661
1
1
100
annotation2473660
1
-10
range2473660
1
85
90
annotation2473637
1
-35
range2473637
1
62
67
BBa_J56013
1
BBa_J56013
Rbs2 ribosome binding site
Matt Eames
2006-10-31T12:00:00Z
2015-08-31T03:22:59Z
false
false
_79_98_
0
1132
98
Not in stock
false
ribosome binding site for transcription initiation
None
Synthesized by DNA 2.0
false
BBa_K418003
1
CP2LacPI1
IPTG inducible Lac promoter cassette
Northwestern University iGEM 2010
2010-10-15T11:00:00Z
2015-05-08T01:12:28Z
false
false
_532_
0
6938
9
It's complicated
true
N/A
N/A
N/A
false
component2263763
1
BBa_J23104
component2263782
1
BBa_Q01121
annotation2263782
1
BBa_Q01121
range2263782
1
44
1416
annotation2263763
1
BBa_J23104
range2263763
1
1
35
BBa_J59001
1
BBa_J59001
tuba
Fatos tuba
2006-08-28T11:00:00Z
2015-08-31T02:02:59Z
false
false
_93_
0
1162
93
Not in stock
false
none
none
none
false
annotation1898348
1
tuba
range1898348
1
1
25
BBa_I732021
1
BBa_I732021
Template for Building Primer Family Member
Zhan Jian
2007-07-26T11:00:00Z
2015-08-31T04:07:56Z
false
false
_156_
0
1572
9
Not in stock
false
N/A
N/A
N/A
false
annotation1939929
1
+1
range1939929
1
98
98
annotation1939928
1
-10
range1939928
1
86
91
annotation1939930
1
consensus elements
range1939930
1
62
98
annotation1939927
1
-35
range1939927
1
62
67
BBa_J61123
1
BBa_J61123
Ribosome Binding Site Family Member
John Anderson
2007-04-24T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_B0074
1
BBa_B0074
Orthogonal RBS
Bartholomew Canton
2006-05-01T11:00:00Z
2015-08-31T04:07:21Z
false
true
_11_6_
0
135
6
Not in stock
false
-- No description --
false
BBa_K1585101
1
BBa_K1585101
Anderson Promoter with lacI binding site
Tobias Schwanemann
2015-08-23T11:00:00Z
2015-09-01T03:27:19Z
false
false
_2002_
24474
24474
9
false
Promoters of the Anderson Promoter Collection with lacI binding site derived from [http://parts.igem.org/Part:BBa_R0010 R_0010] to make them [http://openwetware.org/wiki/IPTG IPTG] iducible.
The "lacI binding site" of Part [http://parts.igem.org/Part:BBa_R0010 R_0010] differs from lacO from Part [http://parts.igem.org/Part:BBa_J33207 BBa_J33207] although they should be same.
We choosed part BBa_R0010 because we assumed older parts would be reliable.
Assambly of [http://parts.igem.org/Part:BBa_J23100 J23100] and lacI-binding-site of [http://parts.igem.org/Part:BBa_R0010 R_0010]
false
component2436906
1
BBa_J23101
component2436907
1
BBa_K1585999
annotation2436906
1
BBa_J23101
range2436906
1
1
35
annotation2436907
1
BBa_K1585999
range2436907
1
44
78
BBa_I742145
1
BBa_I742145
sam5 native rbs
Chris French
2007-10-23T11:00:00Z
2015-08-31T04:08:03Z
false
false
_123_
0
837
163
Not in stock
false
This is the native ribosome binding site for sam5 (4-coumarate-3-hydroxylase) of the bacterium Saccharothrix espanaensis.
This is a virtual part to be added to coding sequence I742141.
Saccharothrix espanaensis DSM 44229
false
annotation1955475
1
rbs
range1955475
1
3
9
BBa_K137029
1
BBa_K137029
constitutive promoter with (TA)10 between -10 and -35 elements
Allen Lin
2008-07-20T11:00:00Z
2015-05-08T01:10:09Z
false
false
_187_
0
3112
9
It's complicated
false
constitutive promoter with (TA)10 between -10 and -35 elements
With 10 TA repeats between the -10 and -35 elements, the distance between the two elements is optimal for the sigma factor to bind to the promoter. Thus, the promoter should be in the 'on' state.
This part was PCR amplified from two synthesized primers that bound to each other.
false
annotation1967764
1
-10 element
range1967764
1
23
28
annotation1967765
1
TA repeat
range1967765
1
7
22
BBa_K777007
1
BBa_K777007
Tar receptor under the control of constitutive promoter J23113
Bianca Genenncher
2012-09-20T11:00:00Z
2015-05-08T01:13:16Z
false
false
_1029_
0
11946
9
In stock
false
[[Image:Table_K777001-K777008_new.png|thumb|240px|right|'''Fig. 1:''' Overview of BioBricks containing the ''Tar'' gene downstream of Anderson promoters. (Activity according to Berkeley 2006)]]
The transmembrane chemoreceptor Tar of <i>E. coli</i> mediates chemotaxis towards aspartate and exists as a functional homodimer.
Here we used a set of 8 constitutive [http://partsregistry.org/Part:BBa_J23113 Anderson promoters] from the 2006 Berkeley group to test how different levels of constitutive ''Tar'' expression affect the chemotaxis of ''E. coli''.
<br> <br> <br>
<br> <br> <br>
<br> <br> <br>
<br> <br> <br>
* Genomic sequence was amplified using the following primers.
** Primers PCR: Base pairs in caps represent the respective restriction sites followed by either prefix or suffix. Primers were provided by SIGMA.
*** Fwd: Tar for + prefix: 5?? actGAATTCgcggccgctTCTAGAtgattaaccgtatccgcgtagtc 3??
*** Rev: Tar rev + suffix: 5?? tcCTGCAGcggccgctACTAGTcaaaatgtttcccagtttggatc 3??
<br>
* One XbaI site was found at position 420. The restriction site was changed from TCTAGt to CCTAGt via QuikChange PCR.
** Primers QuikChange (QC): Primers were provided by SIGMA.
*** Fwd: TarQC for: 5?? ACTGATTGATTAcCTAGATTATGGCAATACTGGAG 3??
*** Rev: TarQC rev: 5?? TGCCATAATCTAGgTAATCAATCAGTTCAGTTAAC 3??<br>(the uncapitalized letter induces the mutation for removal of the XbaI site)
*The part was amplified from genomic DNA of ''E. coli'' str. K-12 substr. DH10B, complete genome (CP000948.1).
*J23113 information was taken from the partsregistry and physical DNA from the 2012 distribution kit.
false
component2189403
1
BBa_K777000
component2189399
1
BBa_J23113
annotation2189399
1
BBa_J23113
range2189399
1
1
35
annotation2189403
1
BBa_K777000
range2189403
1
42
1703
BBa_K112907
1
BBa_K112907
Pcon
Bing Xia
2008-10-23T11:00:00Z
2015-05-08T01:09:20Z
false
false
_224_
0
2998
9
Not in stock
false
A constituitive promoter
false
BBa_K777104
1
BBa_K777104
flhDC operon under the control of constitutive promoter J23106
Team Goettingen
2012-09-18T11:00:00Z
2015-05-08T01:13:16Z
false
false
_1029_
0
12106
9
In stock
false
[[Image:Table_K777101-K777108_new.jpg|thumb|240px|right|'''Fig. 1:''' Overview of BioBricks containing the ''flhDC'' operon downstream of Anderson promoters. (Activity according to Berkeley 2006)]]
The ''flhDC'' operon is the master regulator of motility and chemotaxis in ''E. coli''. FlhDC forms heterotetramers and activates class II operons in concert with sigma factor 70. Among the gene products of class II operons are several components of the flagellum and the alternative sigma factor FliA which is essential for the transcription of class III genes.
<br>Here we used a set of 8 constitutive Anderson-promoters from the 2006 Berkeley group to test how different levels of constitutive ''flhDC'' expression affect the motility of ''E. coli''.
* The PstI restriction site in the ''flhDC'' sequence was mutated to CTGCGG using the reverse primer
* ''flhDC'' was amplified from genomic DNA of ''E. coli'' DH10B via PCR using the following primers:
** Fwd: 5'-actgaattcgcggccgcttctagatgcatacctccgagttgctg-3'
** Rev: 5'-tcctgcagcggccgctactagttactgcccgggatggcggttgacataagcCgcaggcaaagctgccaacag-3'<br>(the capitalized "C" induces the mutation for removal of the PstI site)
* The part was amplified from genomic DNA of ''E. coli'' str. K-12 substr. DH10B, complete genome (CP000948.1).
* J23106 information was taken from the partsregistry and physical DNA from the 2012 distribution kit.
false
component2187047
1
BBa_K777100
component2187039
1
BBa_J23106
annotation2187039
1
BBa_J23106
range2187039
1
1
35
annotation2187047
1
BBa_K777100
range2187047
1
42
910
BBa_B0077
1
BBa_B0077
Specialized RBS
Bartholomew Canton
2006-05-01T11:00:00Z
2015-08-31T04:07:21Z
false
false
_11_6_
0
135
6
Not in stock
false
-- No description --
false
BBa_K1468004
1
BBa_K1468004
pTet + gene encoding LacZ
Pedro Luis Dorado Morales
2014-10-02T11:00:00Z
2015-05-08T01:10:38Z
false
false
_1847_
0
11756
9
It's complicated
true
-
-
-
false
annotation2400594
1
TetR 2
range2400594
1
26
44
annotation2400596
1
LacZ
range2400596
1
61
3129
annotation2400598
1
C --> T
range2400598
1
3085
3085
annotation2400597
1
START
range2400597
1
61
63
annotation2418063
1
LacZ protein
range2418063
1
61
3129
annotation2400595
1
-10
range2400595
1
43
48
annotation2400601
1
BBa_K1468004
range2400601
1
1
3129
annotation2400593
1
BBa_R0040
range2400593
1
1
54
annotation2400599
1
STOP
range2400599
1
3129
3129
annotation2400591
1
TetR 1
range2400591
1
1
19
annotation2400592
1
-35
range2400592
1
20
25
annotation2400600
1
BBa_I732005
range2400600
1
61
3129
BBa_K777003
1
BBa_K777003
Tar receptor under the control of constitutive promoter J23105
Bianca Genenncher
2012-09-20T11:00:00Z
2015-05-08T01:13:16Z
false
false
_1029_
0
11946
9
It's complicated
false
[[Image:Table_K777001-K777008_new.png|thumb|240px|right|'''Fig. 1:''' Overview of BioBricks containing the ''Tar'' gene downstream of Anderson promoters. (Activity according to Berkeley 2006)]]
The transmembrane chemoreceptor Tar of <i>E. coli</i> mediates chemotaxis towards aspartate and exists as a functional homodimer.
Here we used a set of 8 constitutive [http://partsregistry.org/Part:BBa_J23105 Anderson promoters] from the 2006 Berkeley group to test how different levels of constitutive ''Tar'' expression affect the chemotaxis of ''E. coli''.
<br> <br> <br>
<br> <br> <br>
<br> <br> <br>
<br> <br> <br>
* Genomic sequence was amplified using the following primers.
** Primers PCR: Base pairs in caps represent the respective restriction sites followed by either prefix or suffix. Primers were provided by SIGMA.
*** Fwd: Tar for + prefix: 5?? actGAATTCgcggccgctTCTAGAtgattaaccgtatccgcgtagtc 3??
*** Rev: Tar rev + suffix: 5?? tcCTGCAGcggccgctACTAGTcaaaatgtttcccagtttggatc 3??
<br>
* One XbaI site was found at position 420. The restriction site was changed from TCTAGt to CCTAGt via QuikChange PCR.
** Primers QuikChange (QC): Primers were provided by SIGMA.
*** Fwd: TarQC for: 5?? ACTGATTGATTAcCTAGATTATGGCAATACTGGAG 3??
*** Rev: TarQC rev: 5?? TGCCATAATCTAGgTAATCAATCAGTTCAGTTAAC 3??<br>(the uncapitalized letter induces the mutation for removal of the XbaI site)
*The part was amplified from genomic DNA of ''E. coli'' str. K-12 substr. DH10B, complete genome (CP000948.1).
*J23105 information was taken from the partsregistry and physical DNA from the 2012 distribution kit.
false
component2189293
1
BBa_J23105
component2189297
1
BBa_K777000
annotation2189293
1
BBa_J23105
range2189293
1
1
35
annotation2189297
1
BBa_K777000
range2189297
1
42
1703
BBa_K292000
1
BBa_K292000
Double terminator + constitutive promoter
David Charoy
2009-10-17T11:00:00Z
2015-05-08T01:11:49Z
false
true
_394_
0
5212
9
It's complicated
false
This part contains a double terminator and a constitutive prokaryotic promoter. It is a simple promoter to begin gene transcription. For Sup???biotech-Paris (2009) team this part is used after to be added to a recombinant lambda phage to begin the transcription of synthetic genes inside the Lambda phage genome.
N/A
BBa_B0014 : Designed by Reshma Shetty Group: Registry (2003-07-16)
BBa_J23100 : Designed by John Anderson Group: iGEM2006_Berkeley (2006-08-04)
false
component2059157
1
BBa_B0012
component2059161
1
BBa_B0011
component2059163
1
BBa_J23100
annotation2059161
1
BBa_B0011
range2059161
1
50
95
annotation2059163
1
BBa_J23100
range2059163
1
104
138
annotation2059157
1
BBa_B0012
range2059157
1
1
41
BBa_K777005
1
BBa_K777005
Tar receptor under the control of constitutive promoter J23109
Bianca Genenncher
2012-09-20T11:00:00Z
2015-05-08T01:13:16Z
false
false
_1029_
0
11946
9
It's complicated
false
[[Image:Table_K777001-K777008_new.png|thumb|240px|right|'''Fig. 1:''' Overview of BioBricks containing the ''Tar'' gene downstream of Anderson promoters. (Activity according to Berkeley 2006)]]
The transmembrane chemoreceptor Tar of <i>E. coli</i> mediates chemotaxis towards aspartate and exists as a functional homodimer.
Here we used a set of 8 constitutive [http://partsregistry.org/Part:BBa_J23109 Anderson promoters] from the 2006 Berkeley group to test how different levels of constitutive ''Tar'' expression affect the chemotaxis of ''E. coli''.
<br> <br> <br>
<br> <br> <br>
<br> <br> <br>
<br> <br> <br>
* Genomic sequence was amplified using the following primers.
** Primers PCR: Base pairs in caps represent the respective restriction sites followed by either prefix or suffix. Primers were provided by SIGMA.
*** Fwd: Tar for + prefix: 5?? actGAATTCgcggccgctTCTAGAtgattaaccgtatccgcgtagtc 3??
*** Rev: Tar rev + suffix: 5?? tcCTGCAGcggccgctACTAGTcaaaatgtttcccagtttggatc 3??
<br>
* One XbaI site was found at position 420. The restriction site was changed from TCTAGt to CCTAGt via QuikChange PCR.
** Primers QuikChange (QC): Primers were provided by SIGMA.
*** Fwd: TarQC for: 5?? ACTGATTGATTAcCTAGATTATGGCAATACTGGAG 3??
*** Rev: TarQC rev: 5?? TGCCATAATCTAGgTAATCAATCAGTTCAGTTAAC 3??<br>(the uncapitalized letter induces the mutation for removal of the XbaI site)
*The part was amplified from genomic DNA of ''E. coli'' str. K-12 substr. DH10B, complete genome (CP000948.1).
*J23109 information was taken from the partsregistry and physical DNA from the 2012 distribution kit.
false
component2189372
1
BBa_K777000
component2189368
1
BBa_J23109
annotation2189368
1
BBa_J23109
range2189368
1
1
35
annotation2189372
1
BBa_K777000
range2189372
1
42
1703
BBa_K823009
1
BBa_K823009
Anderson promoter J23107
Korinna Kraft
2012-09-07T11:00:00Z
2015-05-08T01:13:30Z
false
false
_1081_
0
12081
9
Released HQ 2013
In stock
false
Anderson promoter J23107 (with one nucleotide different to the original Anderson promoter sequence) without RFP in backbone vector pSB1C3 to easily fuse the promoter with other reporters e.g. the lux operon.
no considerations
Partsregistry
false
annotation2182531
1
J23107
range2182531
1
1
35
annotation2182532
1
-35 box
range2182532
1
1
6
annotation2182533
1
-10 box
range2182533
1
24
29
BBa_K112706
1
BBa_K112706
Pspv2 from <I>Salmonella</I>
Bing Xia
2008-10-20T11:00:00Z
2015-05-08T01:09:18Z
false
false
_224_
0
2998
9
Not in stock
false
The spv2 promoter.
----
This part is in BBb Format. It is flanked by BamHI and BglII sites instead of XbaI and SpeI. More information about the BBb Format is available at:<br>
[http://openwetware.org/wiki/Template:AndersonLab:BBb_Standard BBb Standard Description Page]
<pre>
Construction of <Pspv2> basic part K112706
PCR of dv015/dv016 on pBca1037 (500bp, EcoRI/BamHI/DpnI)
Sub into pBca1256 (EcoRI/BamHI, 2472+ 500, L)
Product is pBca1256-K112706
-----------------------------------------------
dv015 Forward biobricking of <Pspv2>
cgataGAATTCatgAGATCTccttatgcagcgtaagggccgcaac
dv016 Reverse biobricking of <Pspv2>
cgttaGGATCCGATAATGTtTGCAGGGGAATTATTTTG
</pre>
false
BBa_M13508
1
BBa_M13508
M13K07 gene VIII RBS
Natalie Kuldell
2006-12-14T12:00:00Z
2015-05-08T01:13:56Z
false
true
_45_
0
314
1
Not in stock
false
This RBS is part of the bacteriophage M13 genome, initiating translation of the gene VIII message (BBa_M13008). The part aligns with base pairs 1285-1300 in M13K07 genome. It was identified as the RBS for gene VIII message by Wezenbeek et al in Gene (1980) 11: 129-148
none
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban
false
BBa_K137090
1
BBa_K137090
optimized (A) repeat constitutive promoter with 17 bp between -10 and -35 elements
Allen Lin
2008-08-20T11:00:00Z
2015-05-08T01:10:10Z
false
false
_187_
0
3112
9
Not in stock
false
optimized (A) repeat constitutive promoter with 17 bp between -10 and -35 elements
None
PCR
false
BBa_J61138
1
BBa_J61138
Ribosome Binding Site Family Member
John Anderson
2007-04-24T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_M13501
1
BBa_M13501
M13K07 gene I RBS
Natalie Kuldell
2006-12-14T12:00:00Z
2015-05-08T01:13:56Z
false
false
_45_
0
314
1
Not in stock
false
This RBS is part of the bacteriophage M13 genome, initiating translation of the gene I message (BBa_M13001). The part aligns with base pairs 8252-8267 in M13K07 genome. It was identified as the RBS for gene II message by Wezenbeek et al in Gene (1980) 11: 129-148
none
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban
false
BBa_K823000
1
BBa_K823000
P<sub>liaG</sub>
Korinna Kraft
2012-07-15T11:00:00Z
2015-05-08T01:13:29Z
false
false
_1081_
0
12081
9
Released HQ 2013
In stock
false
Promoter of the liaG gene of Bacillus subtilis, weak constitutive
no considerations
Bacillus subtilis
false
annotation2182555
1
-10 box
range2182555
1
105
110
annotation2182553
1
PliaG
range2182553
1
1
121
annotation2182554
1
-35 box
range2182554
1
81
86
BBa_J64998
1
BBa_J64998
consensus -10 and rest from SP6
Sai Duriseti
2007-03-25T11:00:00Z
2015-05-08T01:08:18Z
false
false
_98_
0
1428
98
Not in stock
false
false
annotation1921745
1
Sigma 70 -10
range1921745
1
1
19
BBa_J61114
1
BBa_J61114
Ribosome Binding Site Family Member
John Anderson
2007-04-23T11:00:00Z
2015-08-31T02:03:00Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_K809003
1
UPcox1
Up elements of cox1 gene
Qiwu XU
2012-09-19T11:00:00Z
2015-05-08T01:13:26Z
false
false
_1066_
0
11943
9
It's complicated
true
Up elements (including promoter and RBS) of cox2 gene from Saccharomyces cerevisiae mitochondrial DNA.
Designed by Qiwu XU, BioBrick restriction enzyme sites added.
Synthesized from LifeTechonology
false
annotation2188526
1
cox1 up elements
range2188526
1
497
497
annotation2188525
1
cox1 up elements
range2188525
1
1
1
BBa_K165002
1
BBa_K165002
Kozak sequence (yeast RBS)
John Szymanski
2008-10-25T11:00:00Z
2015-05-08T01:10:55Z
false
false
_267_
0
2512
58
Released HQ 2013
In stock
false
The kozak sequence acts as a eukaryotic RBS. It is cloned directly between a promoter and coding region.
-
-
false
BBa_I766556
1
BBa_I766556
pAdh (Strong) Promoter
Nili Sommovilla
2007-08-15T11:00:00Z
2015-08-31T04:08:10Z
false
false
_155_
0
1931
9
Not in stock
false
Strong Expression level Constitutive promoter in yeast
none
Endogenous promoter for Alcohol Dehydrogenase
false
BBa_J64026
1
BBa_J64026
sigE RBS
Dan Widmaier
2008-01-16T12:00:00Z
2015-08-31T01:56:26Z
false
false
_98_
0
2407
98
Not in stock
false
This is the natural RBS for the sigE chaperone (BBa_J64025) in Salmonella Typhimurium LT2.
This part was not designed with compatibility to biobrick standard assembly in mind. This RBS has not been explicitly assayed for expression rate.
Salmonella LT2 Genomic DNA
false
annotation1959625
1
sigE RBS
range1959625
1
1
18
BBa_J61107
1
BBa_J61107
Ribosome Binding Site Family Member
John Anderson
2007-04-23T11:00:00Z
2015-08-31T02:03:00Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
true
BBa_K113011
1
BBa_K113011
more overlapping T7 promoter
Wu Jingjing, Wang Jinyu
2008-10-25T11:00:00Z
2015-05-08T01:09:20Z
false
false
_254_
0
2711
9
It's complicated
false
Two T7 promoters are reversely overlapping in five base pairs, with the third one mutated from A to G.
It is difficult to make this short DNA by PCR as both sides are T7 promoters, which are very similar. It is highly possible that they form loops before they can be synthesized by PCR. Thus we order two single stranded DNA and then anneal them together by touchdown PCR.
The sequence of T7 promoter is TAATACGACTCACTATA (from 5' to 3').
false
annotation1989359
1
T7 promoter
range1989359
1
4
21
annotation1989380
1
T7 promoter
range1989380
1
17
34
BBa_K137031
1
BBa_K137031
constitutive promoter with (C)10 between -10 and -35 elements
Allen Lin
2008-07-20T11:00:00Z
2015-05-08T01:10:09Z
false
false
_187_
0
3112
9
It's complicated
false
constitutive promoter with (C)10 between -10 and -35 elements
With 10 C repeats between the -10 and -35 elements, the distance between the two elements is optimal for the sigma factor to bind to the promoter. Thus, the promoter should be in the 'on' state.
This part was PCR amplified from two synthesized primers that bound to each other.
false
annotation1967769
1
C repeat
range1967769
1
27
36
annotation1967768
1
-10
range1967768
1
50
55
BBa_J56016
1
BBa_J56016
Rbs-orig - ribosome binding site
Matt Eames
2006-10-31T12:00:00Z
2015-08-31T03:22:59Z
false
false
_79_98_
0
1132
98
Not in stock
false
Ribosome binding site for transcription initiation
None
Synthesized by DNA 2.0
false
BBa_J61120
1
BBa_J61120
Ribosome Binding Site Family Member
John Anderson
2007-04-24T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_K823014
1
BBa_K823014
Anderson promoter J23118
Korinna Kraft
2012-09-07T11:00:00Z
2015-07-07T11:51:43Z
false
false
_1081_
4206
12081
9
Released HQ 2013
In stock
false
Anderson promoter J23118 without RFP in backbone vector pSB1C3 to easily fuse the promoter with other reporters e.g. the lux operon.
no considerations
Partsregistry
false
annotation2182547
1
-35 box
range2182547
1
1
6
annotation2182546
1
J23118
range2182546
1
1
35
annotation2182548
1
-10 box
range2182548
1
24
29
BBa_I723019
1
BBa_I723019
RBS for XylR
Scott Ramsay
2007-10-24T11:00:00Z
2015-08-31T04:07:54Z
false
false
_126_
0
2140
9
Not in stock
false
This is the naturally-occurring RBS found in the regulatory region of the DntR gene.
gataaaaacaagaggaaaacaa
[Chistine/Maia]
[Christine/Maia]
false
annotation1955263
1
RBS
range1955263
1
1
20
BBa_J61104
1
BBa_J61104
Ribosome Binding Site Family Member
John Anderson
2007-04-23T11:00:00Z
2015-08-31T02:03:00Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_I766557
1
BBa_I766557
pSte5 (Weak) Promoter
Nili Sommovilla
2007-08-15T11:00:00Z
2015-08-31T04:08:10Z
false
false
_155_
0
1931
9
Not in stock
false
low expression, constitutive promoter in yeast
none
endogenous promoter for Sterile 5
false
BBa_J61147
1
BBa_J61147
{rbs1} Library Member in BBb
John Anderson
2007-09-03T11:00:00Z
2015-08-31T01:56:25Z
false
false
_95_
0
483
95
Not in stock
false
{{BBbRBS1Family}}
{{BerkiGEM2007-Biobrick2.0Intro}}
Synthetic
false
BBa_I14018
1
Bla
P(Bla)
Vikram Vijayan, Allen Hsu, Lawrence Fomundam
2004-08-01T11:00:00Z
2015-08-31T04:07:37Z
false
false
_4_
0
171
7
Released HQ 2013
In stock
false
P(Bla), Medium Transcription
Plasmid pUC19
true
annotation1027016
1
-10
range1027016
1
25
30
annotation1018027
1
P(Bla)
range1018027
1
1
35
annotation1027020
1
-35
range1027020
1
4
9
BBa_J23109
1
BBa_J23109
constitutive promoter family member
John Anderson
2006-08-16T11:00:00Z
2015-08-31T04:08:40Z
false
true
_52_
0
483
95
In stock
true
Later
N/A
Later
true
BBa_J64013
1
BBa_J64013
sipA RBS
Dan Widmaier
2008-01-16T12:00:00Z
2015-08-31T01:56:26Z
false
false
_98_
0
2407
98
Not in stock
false
This is the natural RBS that drives the sipA effector protein in the Salmonella SPI-1 system
This part was not designed with compatibility to biobrick standard assembly in mind. This RBS has not been explicitly tested in an expression assasy such as B-Gal or GFP expression.
Salmonella LT2 Genomic DNA
false
annotation1959612
1
sicA RBS
range1959612
1
1
18
BBa_K1467101
1
BBa_K1467101
GoldenGate compatible 35s Promoter
Cara Deal
2014-09-23T11:00:00Z
2015-05-29T01:36:07Z
false
false
_1846_
4206
21550
9
In stock
false
35S is a plant specific promoter obtained from Cauliflower Mosaic Virus. The part is intended for use as a constitutive promoter for gene expression experiments.
The part is compatible with GoldenGate MoClo Assembly Standard (free from BsaI and BpiI recognition sequences).
Domestication for GoldenGate (Removal of internal BsaI and BpiI recognition sequences).
Cauliflower Mosaic Virus (CaMV)
false
BBa_B2002
1
T7 0.4
T7 RBS 0.4
Heather Keller
2006-09-27T11:00:00Z
2015-08-31T04:07:21Z
false
true
_11_
0
571
10
Not in stock
false
This is the -20 to -1 region of T7 gp0.7, which contains the native RBS region for this gene. The physical instantiation of this part does not exist. This part is not compatible with Standard Biobricks assembly methods, as the scar created during assembly would interrupt the spacing between the RBS and the start codon of the CDS. Individuals wishing to use this RBS sequence in their assembles should refer to part XXXXX. (Information forthcoming)
The -20 to -1 region was chosen to be representative of the RBS region of the T7 genes for the following reasons:
1) The Shine-Delgarno region is contained within this defined region for all T7 genes.
2) Current literature suggests that when bound to the Translation Start Site (0), the Ribosome covers positions -20 to +13.
Genome of wild-type bacteriophage T7, positions 2001-2020. Includes the -20 to -1 region of gp0.7.
false
annotation1902419
1
SD region
range1902419
1
4
10
BBa_J61117
1
BBa_J61117
Ribosome Binding Site Family Member
John Anderson
2007-04-23T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
In stock
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
true
BBa_J61122
1
BBa_J61122
Ribosome Binding Site Family Member
John Anderson
2007-04-24T11:00:00Z
2015-08-31T01:59:49Z
false
false
_95_
0
483
95
It's complicated
false
{{JCA_Arkin_RBSFamily}}
N/A
N/A
false
BBa_M13104
1
BBa_M13104
M13K07 gene IV promoter
Natalie Kuldell
2006-12-15T12:00:00Z
2015-05-08T01:13:55Z
false
false
_45_
0
314
1
Not in stock
false
This part is from the bacteriophage M13 genome, bp 4055-4103 in M13K07. It directs transcription of M13 gene IV (BBa_M13504, BBa_M13004). Its identity as a promoter was described in Gene (1980) 11:129-148 based on -10,-35 homology and fragment of genome able to bind RNAP.
none
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban.
false
BBa_I719005
1
pT7
T7 Promoter
Imperial 2007
2007-10-23T11:00:00Z
2015-08-31T04:07:53Z
false
false
_128_
0
2097
9
Released HQ 2013
In stock
true
Just a T7 Promoter
None
---
true
BBa_J23102
1
BBa_J23102
constitutive promoter family member
John Anderson
2006-08-03T11:00:00Z
2015-08-31T04:08:40Z
false
true
_52_
0
483
95
Released HQ 2013
In stock
true
replace later
N/A
isolated from library of promoters
true
BBa_J61144
1
BBa_J61144
{rbs1} Library Member in BBb
John Anderson
2007-09-03T11:00:00Z
2015-08-31T01:56:25Z
false
false
_95_
0
483
95
Not in stock
false
{{BBbRBS1Family}}
{{BerkiGEM2007-Biobrick2.0Intro}}
Synthetic
false
BBa_K124001
1
pTEF
Yeast TEF2 Constitutive Promoter
John Szymanski
2008-06-30T11:00:00Z
2015-05-08T01:09:44Z
true
false
_267_
0
2512
58
Released HQ 2013
Discontinued
false
This is a mid-high level constitutive promoter from the yeast gene TEF2.
none
Mumberg, Muller, and Funk. p413 pTEF
http://dx.doi.org/10.1016/0378-1119(95)00037-7
false
BBa_J15001
1
BBa_J15001
strong synthetic E. coli ribosome binding site with SacI site.
Chris French
2007-07-12T11:00:00Z
2015-08-31T04:08:32Z
false
false
_163_
0
837
163
Not in stock
false
This is a strong synthetic E. coli ribosome binding site. It is synthesised as two complementary oligonucleotides rather than being incorporated into a biobrick plasmid. It incorporates a SacI site overlapping the XbaI site, which is preserved when it is added to any other biobrick. This allows easy detection of the RBS after it has been added upstream of a biobrick coding sequence in a plasmid vector.
Note the presence of a SacI site overlapping the XbaI site, which is preserved when this biobrick is added to any other biobrick. At the time of writing, this biobrick is added as a short piece of DNA composed of two complementary oligonucleotides rather than being incorporated into a biobrick cloning vector by itself. It can be added upstream of a biobrick coding sequence, and its presence can easily be detected in miniprep DNA on a gel by using a SacI-SpeI or similar digest.
Synthetic.
false
annotation1938045
1
SacI
range1938045
1
1
3
annotation1938046
1
rbs
range1938046
1
4
10
BBa_K777102
1
BBa_K777102
flhDC operon under the control of constitutive promoter J23104
Team Goettingen
2012-09-18T11:00:00Z
2015-05-08T01:13:16Z
false
false
_1029_
0
12106
9
It's complicated
false
The flhDC operon is the master regulator of motility and chemotaxis in E. coli. FlhDC forms heterotetramers and activates class II operons in concert with sigma factor 70. Among the gene products of class II operons are several components of the flagellum and the alternative sigma factor FliA which is essential for the transcription of class III genes.
Here we used a set of 8 constitutive Anderson-promoters from the 2006 Berkeley group to test how different levels of constitutive flhDC expression affect the motility of E. coli.
* The PstI restriction site in the flhDC sequence was mutated to CTGCGG using the reverse primer
* flhDC was amplified from genomic DNA of E. coli DH10B via PCR using the following primers:
** Fwd: 5'-actgaattcgcggccgcttctagatgcatacctccgagttgctg-3'
** Rev: 5'-tcctgcagcggccgctactagttactgcccgggatggcggttgacataagcCgcaggcaaagctgccaacag-3'<br>(the capitalized "C" induces the mutation for removal of the PstI site)
* The part was amplified from genomic DNA of E. coli str. K-12 substr. DH10B, complete genome (CP000948.1).
* J23100 information was taken from the partsregistry and physical DNA from the 2012 distribution kit.
false
component2187014
1
BBa_K777100
component2187006
1
BBa_J23104
annotation2187006
1
BBa_J23104
range2187006
1
1
35
annotation2187014
1
BBa_K777100
range2187014
1
42
910
BBa_J64028
1
BBa_J64028
sopB RBS
Dan Widmaier
2008-01-16T12:00:00Z
2015-08-31T01:56:26Z
false
false
_98_
0
2407
98
Not in stock
false
This part is the natural RBS for the sopB gene in the Salmonella Type III Secretion System.
This part was not designed with consideration for biobrick standard assembly in mind. This RBS hasn't been explicitly tested for expression rate in a Fluorescence or B-Gal assay.
Salmonella LT2 Genomic DNA
false
annotation1959632
1
sopB RBS
range1959632
1
1
20
BBa_I742126
1
revPlam
Reverse lambda cI-regulated promoter
Caroline Dahl
2007-10-21T11:00:00Z
2015-08-31T04:08:02Z
false
false
_123_
0
1968
9
Not in stock
false
This is an exact 'upside down' version of BBa_R0051. The promoter has two DNA binding sites for lambda cI repressor BBa_C0051. By adding this part, we wish to emphasise the possibility of engineering both DNA strands, and the additional regulatory potential that it gives.
Any 'upside down' (reverse complementary) sequences made by PCR amplification need be made with suffix and prefix is opposite order with respect to the original default sequence.
See BBa_R0051.
false
BBa_J23101
1
BBa_J23101
constitutive promoter family member
John Anderson
2006-08-03T11:00:00Z
2015-08-31T04:08:40Z
false
true
_52_
0
483
95
Released HQ 2013
In stock
true
later
N/A
later
true
BBa_K256020
1
BBa_K256020
J23119:HO1
iGEM09_NTU-Singapore
2009-10-18T11:00:00Z
2015-05-08T01:11:41Z
false
false
_359_
0
4864
9
It's complicated
true
Generator of Heme Oxygenase (HO1)
--
--
false
component2256388
1
BBa_J23119
component2256390
1
BBa_B0034
component2256392
1
BBa_I15008
component2256399
1
BBa_B0015
annotation2256399
1
BBa_B0015
range2256399
1
821
949
annotation2256388
1
BBa_J23119
range2256388
1
1
35
annotation2256392
1
BBa_I15008
range2256392
1
62
812
annotation2256390
1
BBa_B0034
range2256390
1
44
55
BBa_K082000
1
BBa_K082000
reconstruct strong RBS
Yanting Xue , Binjie Xu
2008-10-27T12:00:00Z
2015-05-08T01:08:35Z
false
false
_228_
0
1560
9
It's complicated
false
Strong RBS based on Ron Weiss thesis. Strength is considered relative to BBa_B0031, BBa_B0032, BBa_B0033 and BBa_B0034.
The
The
false
annotation1992768
1
BBa_K082000
range1992768
1
1
17
BBa_K143012
1
Pveg
Promoter veg a constitutive promoter for B. subtilis
James Chappell
2008-09-10T11:00:00Z
2015-05-08T01:10:23Z
false
true
_199_
0
2090
9
Released HQ 2013
In stock
false
Pveg is a constitutive promoter that constitutively expresses the P43 protein in ''B.subtilis''. Pveg contains binding sites for the ''B.sutbilis'' major sigma factor<cite>#1</cite>. Pveg in ''B.subtilis'' utilises two binding sites to cause high expression of genes<cite>#2</cite>, however our Pveg is lacking the upstream site to give a medium level of gene expression. It has been noted that the sporulation master regulatoion factor spoOA interacts with Pveg though it is not known how<cite>#3</cite>. The context with which we used the promoter Pveg is as a '''Polymerase Per Second''' (PoPS) generator.
The biobrick part was designed to include a single binding site for the ''B.subtilis major sigma factor. In addition the biobrick standard was applied to the promoter Pveg sequence.
The Pveg promoter was suggested to us by Dr. Jan-Willem Veening of Newcastle University. This sequence supplied was compared to that of the DBTBS database<cite>#3</cite> then a section containing the binding site synthesised by Geneart.
false
annotation1975704
1
Sigma A-35
range1975704
1
63
68
annotation1975705
1
Sigma A -10
range1975705
1
86
91
BBa_K319005
1
BBa_K319005
yeast mid-length ADH1 promoter
Afnan Azizi
2010-10-15T11:00:00Z
2015-05-08T01:11:58Z
false
false
_437_
0
7363
9
It's complicated
true
This is the full length ADH1 promoter including the distal and proximal portions and their regulatory elements.
There were three options for the length of the promoter - short, middle, and long. The middle length was chosen.
The part was extracted from S. cerevisiae, YPH500 strain, using colony PCR protocols. It consists of 720 bp upstream of ADH1 gene according to SGD sequence.
false
annotation2112269
1
ADH1 promoter
range2112269
1
1
720
BBa_I742130
1
revRBS
Reverse RBS
Caroline Dahl
2007-10-21T11:00:00Z
2015-08-31T04:08:03Z
false
false
_123_
0
1968
9
Not in stock
false
DNA is double-stranded. To translate genes of both strands, you need RBSs in both strands.
Please refer to the original (BB_B0034).
Please refer to the original (BB_B0034).
false
BBa_M13506
1
BBa_M13506
M13K07 gene VI RBS
Natalie Kuldell
2006-12-14T12:00:00Z
2015-05-08T01:13:56Z
false
false
_45_
0
314
1
Not in stock
false
This RBS is part of the bacteriophage M13 genome, initiating translation of the gene VI message (BBa_M13006). The part aligns with base pairs 2840-2855 in M13K07 genome. It was identified as the RBS for gene VI message by Wezenbeek et al in Gene (1980) 11: 129-148
none
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban
false
BBa_B0071
1
BBa_B0071
Specialized RBS
Barry Canton
2006-03-03T12:00:00Z
2015-08-31T04:07:21Z
false
false
_11_6_
0
135
6
Not in stock
false
This RBS has the modified Shine-Dalgarno sequence, it has a reduced secondary structure relative to using the actual Brink sequence with mixed connective sites flanking it. This RBS is modified from B0071 by reducing the 3' sequence so that the SD to ATG spacing is closer to that which is optimal for <I>E. coli</I>.
false
BBa_B0075
1
BBa_B0075
Orthogonal RBS
Felix Moser
2008-01-17T12:00:00Z
2015-08-31T04:07:21Z
false
false
_11_
0
2398
11
Not in stock
false
Predicted by Lon Chubiz to be RBS sequence with strongest affinity for T7 ribosomes.
initial AA may be unnecessary
Lon Chubiz
false
annotation1959963
1
rbs
range1959963
1
1
8