Synthetic Biology:Vectors/Parts: Difference between revisions
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| No | | No |
Revision as of 16:43, 9 March 2006
This is a list of BioBricks parts for use in construction of modular vectors.
Some have just been designed while others have been constructed and tested. See the associated registry page for details.
Replication origins
- <bbpart>BBa_I50000</bbpart>: F plasmid backbone with BioBricks restriction sites removed
- <bbpart>BBa_I50010</bbpart>: oriV origin which requires TrfA protein to be functional.
- <bbpart>BBa_I50020</bbpart>: high copy origin of replication from pSB1A3
- <bbpart>BBa_I50030</bbpart>: a pBR322 origin.
- <bbpart>BBa_I50040</bbpart>: a near minimal pSC101 origin.
- <bbpart>BBa_I50050</bbpart>: a R6K gamma origin. See also EZ-Tn5™ <R6Kγori /KAN-2> Sequence general information (Note: this origin will only replicate in a pir+ strain.)
Antibiotic resistance cassettes
- <bbpart>BBa_P1001</bbpart>: cassette providing tetracycline resistance.
- <bbpart>BBa_P1000</bbpart>: cassette providing chloramphenicol resistance.
- <bbpart>BBa_P1002</bbpart>: cassette providing ampicillin resistance.
- <bbpart>BBa_P1003</bbpart>: cassette providing kanamycin resistance.
- <bbpart>BBa_P1004</bbpart>: cassette providing ampicillin resistance in reverse orientation.
- <bbpart>BBa_P1005</bbpart>: cassette providing tetracycline resistance and ampicillin resistance with terminators.
- <bbpart>BBa_P1006</bbpart>: cassette providing chloramphenicol resistance and ampicillin resistance with terminators.
- <bbpart>BBa_P1007</bbpart>: cassette providing kanamycin resistance and ampicillin resistance with terminators.
Terminators
- <bbpart>BBa_B0055</bbpart>: upstream flanking terminator
- <bbpart>BBa_B0054</bbpart>: downstream flanking terminator
- <bbpart>BBa_B0053</bbpart>: bidirectional terminator from E. coli his operon
- <bbpart>BBa_B0052</bbpart>: forward terminator
- <bbpart>BBa_B0062</bbpart>: reverse terminator of BBa_B0052.
Notes
It wasn't clear from the website if these were bi-directional? Not sure that this is very important--BC
- I don't know if the terminators are bidirectional. These terminators are used as flanking terminators in other vectors and are claimed to make the cloning of difficult pieces of DNA (like strong promoters) easier. This is why I was planning on orienting the antibiotic resistance cassette in the opposite direction so that read through from upstream of the multiple cloning site is less of an issue. -- RS
Primer binding sites
- <bbpart>BBa_G00100</bbpart>: VF2
- <bbpart>BBa_G00102</bbpart>: VR
Others
- <bbpart> BBa_I1000</bbpart> (old) or <bbpart>BBa_P1010</bbpart> (preferred): ccd operon in BioBricks format
- <bbpart>BBa_B0042</bbpart>: translational stop sequence which provides a stop codon in all six frames (see Non-functional DNA sequences)
- <bbpart>BBa_B0043</bbpart>: forward Topoisomerase I cloning site (see Topoisomerase I mediated TA cloning)
- <bbpart>BBa_B0043</bbpart>: reverse Topoisomerase I cloning site (see Topoisomerase I mediated TA cloning)
- unique identifier for the vector
Ordering information
Part number | Description | Size | BioBrick available | Template available | Want synthesized as an individual part |
BASIC PARTS | |||||
BBa_P1010 | ccd | 675bp | Yes | Yes | No |
BBsuffix | 21bp | No | No | No (can make with primers) | |
BBa_B0044 | TOPO site | 13bp | No | No | No (can make with primers) |
BBa_B0042 | translational stop sequence | 12bp | No | No | No (can make with primers) |
plasmid barcode | |||||
BBa_B0054 | terminator | 69bp | No | No | ? (maybe make with primer extension) |
BBa_G00102 | VR | 20bp | No | No | No (can make with primers) |
BBa_I50000 | F plasmid origin | 4640bp | No | No | Yes (has multiple BioBricks sites) |
BBa_I50020 | high copy origin (pUC19) | 858bp | No | Yes | Maybe |
BBa_I50040 | low copy origin (pSC101) | 2215bp | No | Yes | Maybe (redundant wiht BBa_I50030, have template) |
BBa_I50030 | low copy origin (pBR322) | 2016bp | No | No | Maybe (redundant wiht BBa_I50040) |
BBa_P1000 | CmR | 789bp | Yes (Austin) | Yes | No |
BBa_P1001 | TetR | 1279bp | Yes (Austin) | Yes | No |
BBa_P1003 | KanR | 993bp | Maybe (TK) | Yes | Maybe |
BBa_B0053 | His terminator | 72bp | No | No | Yes (previous synthesis attempt via primer extension failed) |
BBa_B0062 | reverse rrnC terminator | 41bp | No | No | Maybe (maybe make with primer extension, but terminators can be hard) |
BBa_P1004 | reverse AmpR | 941bp | No | Yes | Maybe |
BBa_G00100 | VF2 | 20bp | No | No | No (can make with primers) |
BBa_B0055 | terminator | 78bp | No | No | Maybe (maybe make with primer extension, but terminators can be hard) |
plasmid barcode | |||||
BBa_B0042 | translational stop sequence | 12bp | No | No | No (can make with primers) |
BBa_B0043 | forward TOPO site | 13p | No | No | No (can make with primers) |
BB prefix | 22bp | No | No | No (can make with primers) | |
COMPOSITE PARTS | |||||
BBa_P1005 | tetR and ampR | 1867bp | No | No | Maybe |
BBa_P1006 | cmR and ampR | 2357bp | No | No | Maybe |
BBa_P1007 | kanR and ampR | 2071bp | No | No | Maybe |