Altered Sequence Activities
AlteredSequenceActivities_collection Version 1 (Unknown)
A set of activities to point to ways in which sequences have been altered between source and upload

Excel2SBOL
Excel2SBOL_collection Version 1 (Unknown)
A collection of sbol that is used for the excel2sbol library

sbks activities
sbksactivities_collection Version 1 (Unknown)
Activities linked to the SBKS project

Composite Sequence Pull
Composite Version 1 (Unknown)
When multiple sources where combined to make a new part.

Direct Sequence Pull
direct Version 1 (Unknown)
Used to indicate that a sequence was pulled directly from a source with no alterations made

Sequence Pull with Mutations
mutations Version 1 (Unknown)
Used to indicate that a sequence had mutations added after pulling from the source and before submission

Reverse Orientation Sequence Pull
reverse_orientation Version 1 (Unknown)
Used to indicate that a sequence's orientation was reversed (e.g. 3' to 5' becomes 5' to 3') after pulling from the source and before submission

ACS Synbio Generation
ACS_Synbio_Generation Version 1 (Unknown)
Sequences pulled from the supplementals of the ACS Synthetic Biology journal as part of the SBKS project

Truncated Sequence Pull
Truncated Version 1 (Unknown)
Used to indicate that a sequence was truncated after pulling from the source and before submission

Codon Optimised Sequence Pull
codon_optimisation Version 1 (Unknown)
Used to indicate that a sequence was codon optimised after pulling from the source and before submission

GC Optimised Sequence Pull
GC_Optimised Version 1 (Unknown)
Used to indicate that a sequence was GC optimised after pulling from the source and before submission

Unknown Alteration Sequence Pull
Unknown Version 1 (Unknown)
Used to indicate that a sequence alteration was made between the source and the submission but the nature of the alteration is unknown

Sequence Cut Out of Plasmid
cut_out_of_plasmid Version 1 (Unknown)
Used to indicate that a sequence was cut out of the plasmid referenced as the source

SBOLDesigner CAD Tool
SBOLDesigner Version 3.1 (Agent)
SBOLDesigner is a simple, biologist-friendly CAD software tool for creating and manipulating the sequences of genetic constructs using the Synthetic Biology Open Language (SBOL) 2 data model. Throughout the design process, SBOL Visual symbols, a system of schematic glyphs, provide standardized visualizations of individual parts. SBOLDesigner completes a workflow for users of genetic design automation tools. It combines a simple user interface with the power of the SBOL standard and serves as a launchpad for more detailed designs involving simulations and experiments. Some new features in SBOLDesigner are the ability to add variant collections to combinatorial derivations, enumerating those collections, and the ability to view sequence features hierarchically. There are also some small changes to the way that preferences work in regards to saving a design with incomplete sequences.

iGEM to SBOL conversion
igem2sbol Version 1 (Activity)
Conversion of the iGEM parts registry to SBOL2.1

SyBiOntKB to SBOL conversion
SyBiOntKB2sbol Version 1 (Activity)
Conversion of the Synthetic Biology Ontology knowledge base to SBOL 2.1

BBa_B0030
BBa_B0030 Version 1 (Component)
RBS.1 (strong) -- modified from R. Weiss

BBa_B0034
BBa_B0034 Version 1 (Component)
RBS (Elowitz 1999) -- defines RBS efficiency

Intein_assisted_Bisection_Mapping
Intein_assisted_Bisection_Mapping_collection Version 1 (Collection)
Split inteins are powerful tools for seamless ligation of synthetic split proteins. Yet, their use remains limited because the already intricate split site identification problem is often complicated by the requirement of extein junction sequences. To address this, we augmented a mini-Mu transposon-based screening approach and devised the intein-assisted bisection mapping (IBM) method. IBM robustly revealed clusters of split sites on five proteins, converting them into AND or NAND logic gates. We further showed that the use of inteins expands functional sequence space for splitting a protein. We also demonstrated the utility of our approach over rational inference of split sites from secondary structure alignment of homologous proteins. Furthermore, the intein inserted at an identified site could be engineered by the transposon again to become partially chemically inducible, and to some extent enabled post-translational tuning on host protein function. Our work offers a generalizable and systematic route towards creating split protein-intein fusions and conditional inteins for protein activity control.

BBa_B0010
BBa_B0010 Version 1 (Component)
T1 from E. coli rrnB

SBOLDesigner CAD Tool
SBOLDesigner Version 3.0 (Agent)
SBOLDesigner is a simple, biologist-friendly CAD software tool for creating and manipulating the sequences of genetic constructs using the Synthetic Biology Open Language (SBOL) 2 data model. Throughout the design process, SBOL Visual symbols, a system of schematic glyphs, provide standardized visualizations of individual parts. SBOLDesigner completes a workflow for users of genetic design automation tools. It combines a simple user interface with the power of the SBOL standard and serves as a launchpad for more detailed designs involving simulations and experiments. Some new features in SBOLDesigner are SynBioHub integration, local repositories, importing of parts/sequences from existing files, import and export of GenBank and FASTA files, extended role ontology support, the ability to partially open designs with multiple root ComponentDefinitions, backward compatibility with SBOL 1.1, and versioning.

BBa_B0012
BBa_B0012 Version 1 (Component)
TE from coliphageT7

BBa_K1051006
BBa_K1051006 Version 1 (Component)
Saccharomycescerevisiae TBY-1 terminator with stopcodon

spacer
BBa_B0040 Version 1 (Component)
Spacer.1 (generic)

BBa_K1351028
BBa_K1351028 Version 1 (Component)
LMU Bacillus RBS collection 1

Lock 1
BBa_J01010 Version 1 (Component)
Riboregulator Lock 1

BBa_B0015
BBa_B0015 Version 1 (Component)
double terminator (B0010-B0012)

BBa_K1351030
BBa_K1351030 Version 1 (Component)
LMU Bacillus RBS collection 3

Key 1
BBa_J01008 Version 1 (Component)
Riboregulator key 1

BBa_I712015
BBa_I712015 Version 1 (Component)
HIV-1 protease cleavage site

BBa_K1351032
BBa_K1351032 Version 1 (Component)
LMU Bacillus RBS collection 5

BBa_K1351031
BBa_K1351031 Version 1 (Component)
LMU Bacillus RBS collection 4

BBa_K1351034
BBa_K1351034 Version 1 (Component)
LMU Bacillus RBS collection 7

BBa_K1351033
BBa_K1351033 Version 1 (Component)
LMU Bacillus RBS collection 6

BBa_K1351029
BBa_K1351029 Version 1 (Component)
LMU Bacillus RBS collection 2

BBa_B0029
BBa_B0029 Version 1 (Component)
1 bp deletion from B0031

RFC105 Z
BBa_K1362421 Version 1 (Component)
C-terminal stop overhang TAAT=STOP+1/3Stop RFC[105] overhang Z

p(tetR)
BBa_R0040 Version 1 (Component)
TetR repressible promoter

GFP
BBa_E0040 Version 1 (Component)
green fluorescent protein derived from jellyfish Aequeora victoria wild-type GFP (SwissProt: P42212

BBa_K165007
BBa_K165007 Version 1 (Component)
Gli-1 DNA-binding domain

cI TP901
BBa_C0075 Version 1 (Component)
TP901 cI repressor from phage TP901-1 (+LVA)

BBa_K1763440
BBa_K1763440 Version 1 (Component)
MaSp1/2[1:1]-12(1C3)

BBa_K094120
BBa_K094120 Version 1 (Component)
pLacI/ara-1

BBa_K315014
BBa_K315014 Version 1 (Component)
TetA (Optimized from bp 1 to 141)

BBa_K879091
BBa_K879091 Version 1 (Component)
Upstream region 1

BBa_K315015
BBa_K315015 Version 1 (Component)
TetA gene (DeOptimized from bp 1 to 141)

BBa_K879092
BBa_K879092 Version 1 (Component)
Downstream region 1

BBa_J202000
BBa_J202000 Version 1 (Component)
PBAD mutant#1

BBa_K1713000
BBa_K1713000 Version 1 (Component)
Plac/ara-1, a hybrid promoter