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W3110: 3759194..3760267<br /><gbrowseImage>
W3110: 3759194..3760267<br /><gbrowseImage>
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{{GBrowseLink|W3110|AC_000091|3758194|3761267|GBrowse(W3110)}}  
{{GBrowseLink|W3110|NC_007779|3758194|3761267|GBrowse(W3110)}}  
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!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;" id="V46a9fca85b470"  class=" tableEdit Gene_allele_table dataTable"   
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!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
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&Delta;recF (Keio:JW3677)
recF(del) (Keio:JW3677)
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deletion
deletion
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fig 2
fig 2
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''recF349''
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Growth Phenotype
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Mutations show approximately 50% decrease in viability relative to the wild type, table 1.
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PMID:8820655
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JC18536
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''recF4101'' ''priA2:kan''
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Growth Phenotype
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Double mutation decreases cell viability from wildtype, table 1.
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PMID:8820655
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experimental strain: JC18991
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''recF4115'' ''priA2:kan''
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Growth Phenotype
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Double mutation decreases cell viability, table 1.
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PMID:8820655
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JC18996
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''recF143'' ''priA2::kan''
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Growth Phenotype
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Double mutation causes decreased cell viability, table 1.
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PMID:8820655
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JC18989
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''recF143''
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Sensitivity to
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mutant shows attenuated UV-inducible SOS expression compared to wildtype, fig 1B.
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PMID:8820655
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!|Database!!Accession!!Notes
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
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EcoCyc:EG10828
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10828 ECOCYC:EG10828]
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
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Escherichia coli str. K-12 substr. MG1655  
[[EcoGene]]
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EcoGene:EG10828
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[RegulonDB]]
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[http://ecogene.org/geneinfo.php?eg_id=EG10828 EcoGene:EG10828]
RegulonDB:ECK120000819
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Escherichia coli str. K-12 substr. MG1655  
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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Escherichia coli str. K-12 substr. MG1655  
Escherichia coli str. K-12 substr. MG1655  
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[[EchoBASE]]
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EchoBASE:EB0821
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[[ASAP]]
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ASAP:ABE-0012095
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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Latest revision as of 20:49, 19 September 2013

{{#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

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

Standard name

recF

Mnemonic

Recombination

Synonyms

ECK3692, b3700, JW3677, uvrF[1], uvrF

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Notes

Location(s) and DNA Sequence

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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

83.59 minutes, 83.59 minutes 

MG1655: 3879244..3878171
<gbrowseImage> name=NC_000913:3878171..3879244 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3841582..3840509
<gbrowseImage> name=NC_012967:3840509..3841582 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3766504..3767577
<gbrowseImage> name=NC_012759:3766504..3767577 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3759194..3760267
<gbrowseImage> name=NC_007779:3759194..3760267 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3976828..3975755
<gbrowseImage> name=NC_010473:3975755..3976828 source=DH10B preset=GeneLocation </gbrowseImage>

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Notes

Sequence Features

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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

3878174

Edman degradation

PMID:2228960[2]


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Notes

Alleles and Phenotypes

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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

recF(del) (Keio:JW3677)

deletion

deletion

PMID:16738554[3]

Shigen

recF::Tn5KAN-I-SceI (FB21402)

Insertion at nt 370 in Plus orientation

PMID:15262929[4]

E. coli Genome Project:FB21402

does not contain pKD46

recF::Tn5KAN-I-SceI (FB21403)

Insertion at nt 370 in Plus orientation

PMID:15262929[4]

E. coli Genome Project:FB21403

contains pKD46

recFK36R

K36R

Weakly active

seeded from UniProt:P0A7H0

recF143

CGSC:10318

recF400::Tn5

PMID:2841294[5]

CGSC:67402

recF

deletion

Sensitivity to

decreases sensitivity to Bicyclomycin

PMID:21357484[6]

fig 2

recF349

Growth Phenotype

Mutations show approximately 50% decrease in viability relative to the wild type, table 1.

PMID:8820655[7]

JC18536

recF4101 priA2:kan

Growth Phenotype

Double mutation decreases cell viability from wildtype, table 1.

PMID:8820655[7]

experimental strain: JC18991

recF4115 priA2:kan

Growth Phenotype

Double mutation decreases cell viability, table 1.

PMID:8820655[7]

JC18996

recF143 priA2::kan

Growth Phenotype

Double mutation causes decreased cell viability, table 1.

PMID:8820655[7]

JC18989

recF143

Sensitivity to

mutant shows attenuated UV-inducible SOS expression compared to wildtype, fig 1B.

PMID:8820655[7]


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Notes

Genetic Interactions

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

Genetic Resources

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

Resource Resource Type Source Notes/Reference

JW3677

Plasmid clone

Shigen

PMID:16769691[8]

Status:Clone OK

Primer 1:GCCTCCCTCACCCGCTTGTTGAT

Primer 2:CCATCCGTTATTTTACCCTTTTC

3C10

Kohara Phage

Genobase

PMID:3038334[9]

zid-501::Tn10

Linked marker

CAG18499 = CGSC7458[10]

est. P1 cotransduction: 87% [11]

rbsD296::Tn10

Linked marker

CAG18501 = CGSC7460[10]

est. P1 cotransduction: 9% [11]
Synonyms:zie-296::Tn10

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Notes

Accessions in Other Databases

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

Database Accession Notes

EcoCyc

EcoCyc:EG10828

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10828

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000819

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948209

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0821

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012095

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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<protect>

References

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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. ↑ Griffin, TJ 4th & Kolodner, RD (1990) Purification and preliminary characterization of the Escherichia coli K-12 recF protein. J. Bacteriol. 172 6291-9 PubMed
  3. ↑ 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 Kang, Y et al. (2004) Systematic mutagenesis of the Escherichia coli genome. J. Bacteriol. 186 4921-30 PubMed
  5. ↑ Thoms, B & Wackernagel, W (1988) Suppression of the UV-sensitive phenotype of Escherichia coli recF mutants by recA(Srf) and recA(Tif) mutations requires recJ+. J. Bacteriol. 170 3675-81 PubMed
  6. ↑ Tran, L et al. (2011) Single-gene deletion mutants of Escherichia coli with altered sensitivity to bicyclomycin, an inhibitor of transcription termination factor Rho. J. Bacteriol. 193 2229-35 PubMed
  7. ↑ 7.0 7.1 7.2 7.3 7.4 Sandler, SJ (1996) Overlapping functions for recF and priA in cell viability and UV-inducible SOS expression are distinguished by dnaC809 in Escherichia coli K-12. Mol. Microbiol. 19 871-80 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. ↑ Kohara, Y et al. (1987) The physical map of the whole E. coli chromosome: application of a new strategy for rapid analysis and sorting of a large genomic library. Cell 50 495-508 PubMed
  10. ↑ 10.0 10.1 CGSC: The Coli Genetics Stock Center
  11. ↑ 11.0 11.1 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).

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