recB:Gene: Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older editNewer edit →
Fixing Blattner deletion strains in alleles table.
Adding section & Genetic interactions table to Gene pages.
Line 16: Line 16:
|{{Sub}}[[#Sequence Features|Sequence Features]]
|{{Sub}}[[#Sequence Features|Sequence Features]]
|{{Sub}}[[#Alleles and Phenotypes |Alleles and Phenotypes]]
|{{Sub}}[[#Alleles and Phenotypes |Alleles and Phenotypes]]
|{{Sub}}[[#Genetic Interactions | Genetic Interactions]]
|{{Sub}}[[#Genetic Resources  |Genetic Resources]]
|{{Sub}}[[#Genetic Resources  |Genetic Resources]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
Line 388: Line 389:
===Notes===
===Notes===


==Genetic Interactions==
{{BacktoTop}}
<protect><!--box uid=bc145ea147f7e36caf09c1bfeed4ee9d.16207.P4e04c225d976d-->
<!--
******************************************************************************************
*
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*
****************************************************************************************** -->{{Genetic_interaction_help}}
{|  id="P4e04c225d976d"  class=" tableEdit Genetic_interaction_table dataTable" 
|- {{table_heading_style}}
!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=bc145ea147f7e36caf09c1bfeed4ee9d.16207.P4e04c225d976d&page=16207&pagename={{FULLPAGENAMEE}}&type=0&template=Genetic_interaction_table edit table]</span> || || || || || ||
|}
<!--box uid=bc145ea147f7e36caf09c1bfeed4ee9d.16207.P4e04c225d976d--></protect>
<!-- Genetic Interacdtions Notes -->
===Notes===


==Genetic Resources==
==Genetic Resources==

Revision as of 16:58, 24 June 2011

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Nomenclature Location(s) and DNA Sequence Sequence Features Alleles and Phenotypes Genetic Interactions Genetic Resources Accessions Links References Suggestions

Nomenclature

[back to top]


See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

recB

Mnemonic

Recombination

Synonyms

ECK2816, b2820, JW2788, rorA, ior[1]

edit table


Notes

Location(s) and DNA Sequence

[back to top]


See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

63.59 minutes 

MG1655: 2954025..2950483
<gbrowseImage> name=NC_000913:2950483..2954025 source=ecoli preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2850622..2847080
<gbrowseImage> name=NC_012967:2847080..2850622 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2837631..2841173
<gbrowseImage> name=NC_012759:2837631..2841173 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2954659..2951117
<gbrowseImage> name=AC_000091:2951117..2954659 source=ecoli_W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3047895..3044353
<gbrowseImage> name=NC_010473:3044353..3047895 source=ecoli_DH10B preset=GeneLocation </gbrowseImage>

edit table


Notes

Sequence Features

[back to top]


See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes

Coding Start (SO:0000323)

MG1655

2950486

Edman degradation

PMID:1618858[2]


edit table


Notes

Alleles and Phenotypes

[back to top]


See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

ΔrecB (Keio:JW2788)

deletion

deletion

PMID:16738554[3]

Shigen
CGSC10182[4]

recB::Tn5KAN-I-SceI (FB20945)

Insertion at nt 2423 in Minus orientation

PMID:15262929[5]

E. coli Genome Project:FB20945

contains pKD46

recB::Tn5KAN-I-SceI (FB20946)

Insertion at nt 2423 in Minus orientation

PMID:15262929[5]

E. coli Genome Project:FB20946

does not contain pKD46

recB21

CGSC:4677

recB270(ts)

temperature sensitive

CGSC:8994

recB1067(D1067A)

PMID:9790841[6]

CGSC:71962

recB1080(D1080A)

PMID:11532156[7]

CGSC:72006

recB1082(K1082Q)

PMID:9790841[6]

CGSC:72009

recB60

CGSC:84445

ΔrecB745::kan

PMID:16738554[3]

CGSC:102622


edit table


Notes

Genetic Interactions

[back to top]



Interactor Interaction Allele Score(s) Reference(s) Accessions Notes
edit table


Notes

Genetic Resources

[back to top]


See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource Resource Type Source Notes/Reference

JW2788

Plasmid clone

Shigen

PMID:16769691[8]

Status:Clone OK

Primer 1:GCCAGTGATGTCGCCGAGACACT

Primer 2:CCgGCCTCCTCCAGGGTCATACC

fucP3072::Tn10

Linked marker

CAG12079 = CGSC7427[4]

est. P1 cotransduction: 52% [9]
Synonyms:fuc-3072::Tn10

recD1901::Tn10

Linked marker

CAG12135 = CGSC7429[4]

est. P1 cotransduction: 99% [9]

edit table


Notes

Accessions in Other Databases

[back to top]


See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10824

EchoBASE (EcoliWiki Page)

EchoBASE:EB0817

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2820

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C3414

EcoGene (EcoliWiki Page)

EcoGene:EG10824

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:RECB

CGSC (EcoliWiki Page)

CGSC:311

ASAP (EcoliWikiPage)

ASAP:ABE-0009249


edit table


Notes

Links

[back to top]



<protect>

References

[back to top]


See Help:References for how to manage references in EcoliWiki.

  1. ↑ Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ Masterson, C et al. (1992) Reconstitution of the activities of the RecBCD holoenzyme of Escherichia coli from the purified subunits. J. Biol. Chem. 267 13564-72 PubMed
  3. ↑ 3.0 3.1 Baba, T et al. (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol. Syst. Biol. 2 2006.0008 PubMed
  4. ↑ 4.0 4.1 4.2 CGSC: The Coli Genetics Stock Center
  5. ↑ 5.0 5.1 Kang, Y et al. (2004) Systematic mutagenesis of the Escherichia coli genome. J. Bacteriol. 186 4921-30 PubMed
  6. ↑ 6.0 6.1 Yu, M et al. (1998) Identification of the nuclease active site in the multifunctional RecBCD enzyme by creation of a chimeric enzyme. J. Mol. Biol. 283 797-808 PubMed
  7. ↑ Jockovich, ME & Myers, RS (2001) Nuclease activity is essential for RecBCD recombination in Escherichia coli. Mol. Microbiol. 41 949-62 PubMed
  8. ↑ Kitagawa, M et al. (2005) Complete set of ORF clones of Escherichia coli ASKA library (a complete set of E. coli K-12 ORF archive): unique resources for biological research. DNA Res. 12 291-9 PubMed
  9. ↑ 9.0 9.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).

Categories

Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=recB:Gene&oldid=1250560"