Combining Parts according to sequence homology: Difference between revisions
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|Part number | |Part number | ||
|Directionality/Efficiency | |Directionality/Efficiency | ||
| | |Lenght | ||
|Type | |||
|Location | |||
|Combine with | |||
|- | |- | ||
|[http://partsregistry.org/Part:BBa_B0015 B0015] | |[http://partsregistry.org/Part:BBa_B0015 B0015] | ||
|Bi,98% (F), 30->60% (R) | |Bi,98% (F), 30->60% (R) | ||
|1 | |||
|Double | |||
|In stock | |||
| | | | ||
|- | |- | ||
|[http://partsregistry.org/wiki/index.php?title=Part:BBa_B1001 B1001] | |[http://partsregistry.org/wiki/index.php?title=Part:BBa_B1001 B1001] | ||
|Bi,90% (F), 75% (R) | |Bi,90% (F), 75% (R) | ||
|1 | |||
|Single | |||
| | | | ||
|- | |||
|[http://partsregistry.org/wiki/index.php?title=Part:BBa_B0014 B0014] | |||
|Bi,96% (F), 96% (R) | |||
|1 | |||
|Double | |||
|In stock | |||
| | |||
|- | |||
|[http://partsregistry.org/Part:BBa_B0011 B0011] | |||
|Bi, ,95% (F), 86% (R) | |||
|46bp | |||
|Plate 1, 2A | |||
| | |||
|- | |||
|[http://partsregistry.org/Part:BBa_J61048:Design J61048]] | |||
|Fwd 98% | |||
|113bp | |||
|} | |||
==Common vectors== | |||
{|border="1" | |||
|- | |||
|Plasmid | |||
|Replicon | |||
|Copy number | |||
|- | |||
|pBR322<cite>Bolivar-Gene-1977</cite> and its derivatives | |||
|pMB1 | |||
|15-20 | |||
|- | |||
|pUC vectors | |||
|pMB1 | |||
|500-700 | |||
|- | |- | ||
|pACYC and its derivatives | |pACYC and its derivatives | ||
| Line 28: | Line 69: | ||
|15-20 | |15-20 | ||
|} | |} | ||
==Replicon compatibility== | |||
{| border="1" cellpadding="4" cellspacing="0" style="border:#c9c9c9 1px solid; margin: 1em 1em 1em 0; border-collapse: collapse; width:710px" <!-- This line here formats your table for you. Change the code to change the formatting of your table.--> | |||
| align="center" style="background:#f0f0f0;"|'''Incompatibility group''' | |||
| align="center" style="background:#f0f0f0;"|'''Negative control element''' | |||
| align="center" style="background:#f0f0f0;"|'''Comment''' | |||
|- | |||
| colE1<cite>Bazaral-J-Mol-Biol-1968,Hershfield-Proc-Natl-Acad-Sci-USA-1974</cite>, pMB1 | |||
| RNAI | |||
| controls processing of pre-RNAII into primer. pUC is derived from pBR322 (a single mutation in the pBR322 Primer RNA and deletion of the rop gene) which is derived from a pMB1 replicon, and cannot co-reside with the colE1 incompatibility group. | |||
|- | |||
| IncFII, pT181 | |||
| RNA | |||
| controls synthesis of RepA protein | |||
|- | |||
| P1, F, R6K, pSC101<cite>Cohen-JBacteriol-1977</cite>, p15A<cite>Chang-JBacteriol-1978</cite> | |||
| iterons | |||
| sequesters RepA protein | |||
|} | |||
Replication origins in different incompatibility groups are compatible. Replication origins in the same incompatibility group are not. | |||
Some sets of vectors with compatible origins are available as a part of the [http://www.emdbiosciences.com/html/NVG/DuetTable.html Novagen Duet system]. (from [[User:Tk | TK]]) | |||
==Individual vector links== | |||
''Note: searching for cloning vector <insert vector name> when looking for vector sequences in NCBI Entrez Nucleotide search. It helps to cut down on the number of hits.'' | |||
*[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=6691170 pUC19] | |||
*[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=1817728 pBeloBAC11] | |||
*[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=4878025 pBACe3.6] | |||
*[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=9507713 F plasmid] | |||
*pSCANS [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=Nucleotide&cmd=Retrieve&list_uids=6689911&dopt=GenBank genbank] [http://genome.bnl.gov/Vectors/pscans.php vector info] [http://www.genome.bnl.gov/Protocols/pscans.shtml cookbook] | |||
*[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=42704 pSC101 replication origin] | |||
*[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nuccore&id=208958 pBR322] | |||
*[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nuccore&id=58255 pACYC184] | |||
Latest revision as of 21:01, 18 September 2009
Combinable Terminators
| Part number | Directionality/Efficiency | Lenght | Type | Location | Combine with |
| B0015 | Bi,98% (F), 30->60% (R) | 1 | Double | In stock | |
| B1001 | Bi,90% (F), 75% (R) | 1 | Single | ||
| B0014 | Bi,96% (F), 96% (R) | 1 | Double | In stock | |
| B0011 | Bi, ,95% (F), 86% (R) | 46bp | Plate 1, 2A | ||
| J61048] | Fwd 98% | 113bp |
Common vectors
| Plasmid | Replicon | Copy number |
| pBR322[1] and its derivatives | pMB1 | 15-20 |
| pUC vectors | pMB1 | 500-700 |
| pACYC and its derivatives | p15A[2] | 10-12 |
| pSC101 and its derivatives | pSC101[3] | 5 |
| ColE1 | ColE1[4, 5] | 15-20 |
Replicon compatibility
| Incompatibility group | Negative control element | Comment |
| colE1[4, 5], pMB1 | RNAI | controls processing of pre-RNAII into primer. pUC is derived from pBR322 (a single mutation in the pBR322 Primer RNA and deletion of the rop gene) which is derived from a pMB1 replicon, and cannot co-reside with the colE1 incompatibility group. |
| IncFII, pT181 | RNA | controls synthesis of RepA protein |
| P1, F, R6K, pSC101[3], p15A[2] | iterons | sequesters RepA protein |
Replication origins in different incompatibility groups are compatible. Replication origins in the same incompatibility group are not.
Some sets of vectors with compatible origins are available as a part of the Novagen Duet system. (from TK)
Individual vector links
Note: searching for cloning vector <insert vector name> when looking for vector sequences in NCBI Entrez Nucleotide search. It helps to cut down on the number of hits.
