Cryptococcus neoformans Database in Synthetic Biology Open Language
CnDatabase_collection Version 1 (Unknown)
This is a collection of Biological Genetic Parts of Cryptococcus neoformans containing 23 different promoters, coding sequences and terminators, which were previously used and whose efficacy has already been proven in this organism. This work was made in order to facilitate the build and assembly of genetic circuits and plasmids for the study of this pathogen.

Cryptococcus neoformans Database in Synthetic Biology Open Language
CnD_collection Version 1 (Unknown)
This is a collection of Biological Genetic Parts of Cryptococcus neoformans containing 23 different promoters, coding sequences and terminators, which were previously used and whose efficacy has already been proven in this organism. This work was made in order to facilitate the build and assembly of genetic circuits and plasmids for the study of this pathogen.

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.

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.

SBOLDesigner CAD Tool
SBOLDesigner Version 2.2 (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) 2.0 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_K895006
BBa_K895006 Version 1 (Component)
GFP open reading frame

BBa_K1799016
BBa_K1799016 Version 1 (Component)
NsrR open reading frame

BBa_J23012
BBa_J23012 Version 1 (Component)
Spectinomycin R open-reading-frame basic part

[trbCf]
BBa_J23014 Version 1 (Component)
trbCf open reading frame basic part

BBa_J61044
BBa_J61044 Version 1 (Component)
[LLO] Listeriolysin open reading frame

BBa_K612008
BBa_K612008 Version 1 (Component)
TesA' Open Reading Frame

[TraGr]
BBa_J23013 Version 1 (Component)
TraGr open reading frame basic part

BBa_K1799017
BBa_K1799017 Version 1 (Component)
NsrR open reading frame

Rec-Open
BBa_I726081 Version 1 (Component)
Rec-LRY.RC

Open loop
BBa_K255004 Version 1 (Component)
pTet.lacI-cfp(fusion).terminator.pTet.yfp.terminator

BBa_K313013
BBa_K313013 Version 1 (Component)
loading sequence of RNA phage MS2 (reverse)

BBa_K1362058
BBa_K1362058 Version 1 (Component)
PelB leading sequence as RFC[105] N-terminal insert

BBa_K1371004
BBa_K1371004 Version 1 (Component)
AT-ACP-L1(loading module)

pen LacI
BBa_I14004 Version 1 (Component)
p(pen) . strong RBS . LacI

BBa_K313010
BBa_K313010 Version 1 (Component)
loading sequence of RNA phage MS2

Latex Oper
BBa_K2027039 Version 1 (Component)
Rubber Transferases + Small Rubber Particle Protein Cassette

BBa_K382000
BBa_K382000 Version 1 (Component)
pORE Open Series Vector with BioBrick MCS (Basta resistance)

BBa_K382001
BBa_K382001 Version 1 (Component)
pORE Open Serices Vector with BioBrick MCS (Kan resistance)

pen LacI
BBa_I14008 Version 1 (Component)
p(pen) . strong RBS . LacI

BBa_J15103
BBa_J15103 Version 1 (Component)
lacZ' coding sequence ending in TGA

BBa_K1178001
BBa_K1178001 Version 1 (Component)
Plasmid Backbone pSB1C95 for RFC 95 Open Sequence Initiative

BBa_K1650011
BBa_K1650011 Version 1 (Component)
sRNA Anti-MinC leading to Minicell Production

BBa_K1371039
BBa_K1371039 Version 1 (Component)
loading module+module(1+2)

BBa_K1371036
BBa_K1371036 Version 1 (Component)
pT7-RBS+loading module

BBa_J34812
BBa_J34812 Version 1 (Component)
tRNA loading Glutamate on stop codon TTT

dCas9 B
BBa_K1903002 Version 1 (Component)
dCas9 with protein insertion frames version B

dCas9 A
BBa_K1903001 Version 1 (Component)
dCas9 with protein insertion frames version A

SBOL Compliant Software
SBOLCompliantSoftware_collection Version 1 (Collection)
A collection of software that supports the Synthetic Biology Open Language (SBOL) standard

BBa_I14001
BBa_I14001 Version 1 (Component)
p(pen) . strong RBS . LacI

BBa_K929107
BBa_K929107 Version 1 (Component)
Anti-GFP, IgG1 Fc with TEV site, TMD, mCherry, framed by LoxP

BBa_K929103
BBa_K929103 Version 1 (Component)
B-cell transmembrane region with mCherry and TEV site, framed by LoxP

BBa_K313036
BBa_K313036 Version 1 (Component)
MS2 phage cDNA (loading sequence and replicase-deficient)

BBa_K737049
BBa_K737049 Version 1 (Component)
The leading sequence involved in the YtfJ transcript which can act as the target of the sRNA, spot42

BBa_K737048
BBa_K737048 Version 1 (Component)
The leading sequence involved in the nanC transcript which can act as the target of the sRNA, spot42

BBa_K737050
BBa_K737050 Version 1 (Component)
The leading sequence involved in the SrlA transcript which can act as the target of the sRNA, spot42

BBa_J70033
BBa_J70033 Version 1 (Component)
A BioMortar Part for Creating GSGS Protein Fusions (see Design page)

BBa_K1371037
BBa_K1371037 Version 1 (Component)
pT7-RBS+loading module+KS-AT1+KR1+ACP+KS-AT2

BBa_K1124123
BBa_K1124123 Version 1 (Component)
inverse PCR template for creating new sRNA (plambda-micC sRNA scaffold-terminator)

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.

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.

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.