BBa_K098984
BBa_K098984 Version 1 (Component)
lac inducible mtrB (high expression of QPI)

BBa_K098983
BBa_K098983 Version 1 (Component)
lac inducible mtrB (low expression of QPI)

SEGA
SEGA_collection Version 1 (Collection)
In the Standardized Genome Architecture (SEGA), genomic integration of DNA fragments is enabled by λ-Red recombineering and so-called landing pads that are a common concept in synthetic biology and typically contain features that i) enable insertion of additional genetic elements and ii) provide well-characterized functional parts such as promoters and genes, and iii) provides insulation against genome context-dependent effects. The SEGA landing pads allow for reusable homology regions and time-efficient construction of parallel genetic designs with a minimal number of reagents and handling steps. SEGA bricks, typically synthetic DNA or PCR fragments, are integrated on the genome simply by combining the two reagents (i.e. competent cells and DNA), followed by incubation steps, and successful recombinants are identified by visual inspection on agar plates. The design of the SEGA standard was heavily influenced by the Standard European Vector Architecture (SEVA). SEGA landing pads typically hosts two major genetic “control elements” that influence gene expression on the transcriptional (C1), and translational (C2) level. Furthermore, landing pads contain gadgets such as selection and counterselection markers.

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.

Cello E. Coli Parts
Eco1C1G1T1_collection Version 1 (Collection)
These are the Cello parts for E. Coli circuits

BBa_K102906
BBa_K102906 Version 1 (Component)
TA8 gate from synthetic algorithm v1.1

BBa_K102907
BBa_K102907 Version 1 (Component)
TA9 gate from synthetic algorithm v1.1

BBa_K102908
BBa_K102908 Version 1 (Component)
TA10 gate from synthetic algorithm v1.1

BBa_K102909
BBa_K102909 Version 1 (Component)
TA11 gate from synthetic algorithm v1.1

BBa_K102910
BBa_K102910 Version 1 (Component)
TA12 gate from synthetic algorithm v1.1

BBa_K157002
BBa_K157002 Version 1 (Component)
Transmembrane region of the EGF-Receptor (ErbB-1)

BBa_K102911
BBa_K102911 Version 1 (Component)
TA13 gate from synthetic algorithm v1.2

Q04510+RFP
BBa_K131018 Version 1 (Component)
Intermediate for the Response circuit

BBa_K125810
BBa_K125810 Version 1 (Component)
slr2016 signal sequence + GFP fusion for secretion of GFP

BBa_K156009
BBa_K156009 Version 1 (Component)
OFP (orange fluorescent protein)

BBa_K102905
BBa_K102905 Version 1 (Component)
TA7 gate from synthetic algorithm v1.1

lexA
BBa_K165020 Version 1 (Component)
LexA Synthetic Activator (untagged)

BBa_K165021
BBa_K165021 Version 1 (Component)
Kozak + LexA Synthetic Activator (untagged)

BBa_K165022
BBa_K165022 Version 1 (Component)
Zif268-HIV synthetic activator (untagged)

BBa_K165023
BBa_K165023 Version 1 (Component)
Kozak + Zif268-HIV synthetic activator (untagged)

OriTR
BBa_J01003 Version 1 (Component)
OriT-R (Origin of transfer for the R-plasmid nic region)

BBa_K156024
BBa_K156024 Version 1 (Component)
RBS + OFP

BBa_K116510
BBa_K116510 Version 1 (Component)
GFP under control of pOmpf promoter(K116500+E0240)

BBa_S04142
BBa_S04142 Version 1 (Component)
The Partial Butanol Operon (Parts I725021+I725022)

BBa_S04143
BBa_S04143 Version 1 (Component)
The Partial Butanol Operon (Parts I725023+I725024)

BBa_S04144
BBa_S04144 Version 1 (Component)
The Partial Butanol Operon (Parts I725024+I725025)

BBa_S04145
BBa_S04145 Version 1 (Component)
The Partial Butanol Operon (Parts I725021+I725022+I725023)

BBa_S04147
BBa_S04147 Version 1 (Component)
The Partial Butanol Operon (5 inserts from I725021 to I725025)

BBa_K156027
BBa_K156027 Version 1 (Component)
Genetic attenuator (synthetic transcription terminator) ~68% efficient

BBa_K142024
BBa_K142024 Version 1 (Component)
IPTG-on tetracycline-off pulse generator with LacI mutant (R197A) and TetR expression cassette

BBa_K142025
BBa_K142025 Version 1 (Component)
IPTG-on tetracycline-off pulse generator with LacI mutant (R197F) and TetR expression cassette

BBa_K142026
BBa_K142026 Version 1 (Component)
IPTG-on tetracycline-off pulse generator with LacI mutant (T276A) and TetR expression cassette

BBa_K142027
BBa_K142027 Version 1 (Component)
IPTG-on tetracycline-off pulse generator with LacI mutant (T276F) and TetR expression cassette

BBa_K142028
BBa_K142028 Version 1 (Component)
IPTG-on tetracycline-off pulse generator with LacI mutant (R197A, T276A)/TetR expression cassette

BBa_K142029
BBa_K142029 Version 1 (Component)
IPTG-on tetracycline-off pulse generator with LacI mutant (R197A, T276F)/TetR expression cassette

BBa_K142030
BBa_K142030 Version 1 (Component)
IPTG-on tetracycline-off pulse generator with LacI mutant (R197F, T276A)/TetR expression cassette

BBa_K142031
BBa_K142031 Version 1 (Component)
IPTG-on tetracycline-off pulse generator with LacI mutant (R197F, T276F)/TetR expression cassette

BBa_K116501
BBa_K116501 Version 1 (Component)
RpaA(regulator of phycobilisome-associated)

BBa_K116503
BBa_K116503 Version 1 (Component)
GFP under control of pOmpC promoter.R0082+E0240

BBa_K156028
BBa_K156028 Version 1 (Component)
Genetic attenuator (synthetic transciption terminator) ~45% efficient

BBa_K156029
BBa_K156029 Version 1 (Component)
Genetic attenuator (synthetic transcription terminator) ~17% efficient

BBa_K116520
BBa_K116520 Version 1 (Component)
GFP under control of RpaA activated pOmpF promoter

BBa_K116523
BBa_K116523 Version 1 (Component)
GFP under control of RpaA activated pOmpC promoter

BBa_K116000
BBa_K116000 Version 1 (Component)
A homolog of OCT3 (organic cation transporter 3) from E coli. K12

BBa_K116002
BBa_K116002 Version 1 (Component)
measurement of NhaA promoter activity

BBa_K079051
BBa_K079051 Version 1 (Component)
LacI repressor and GFP reporter proteins controlled by the J23118 promoter and Lac 1 operator

BBa_K079052
BBa_K079052 Version 1 (Component)
LacI repressor and GFP reporter proteins controlled by the J23118 promoter and Lac symmetric operato

BBa_K153008
BBa_K153008 Version 1 (Component)
CqsA - the CAI-1 producer

BBa_K089005
BBa_K089005 Version 1 (Component)
-35 to Tc start site of phaC