fabF:Gene: Difference between revisions

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!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
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W3110: 1153516..1154757<br /><gbrowseImage>
W3110: 1153516..1154757<br /><gbrowseImage>
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name=NC_007779:1153516..1154757
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{{GBrowseLink|W3110|AC_000091|1152516|1155757|GBrowse(W3110)}}  
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{{GBrowseFastaLink|W3110|AC_000091|1153516|1154757|FASTA Dump}}  
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="Z46a9bf7491cbc"  class=" tableEdit Gene_sequence_features_table"   
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!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
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{| {{Prettytable}} id="R46a9bf74d2ee3"  class=" tableEdit Gene_allele_table dataTable"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;" id="R46a9bf74d2ee3"  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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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="Y4e04baa4840a5"  class=" tableEdit Genetic_interaction_table dataTable"   
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!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
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!|Resource!!Resource Type!!Source!!Notes/Reference
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!|Database!!Accession!!Notes
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG12606 ECOCYC:EG12606]
EcoCyc:EG12606
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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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[[EcoGene]]
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EcoGene:EG12606
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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=EG12606 EcoGene:EG12606]
RegulonDB:ECK120002329
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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:EB2490
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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-0003705
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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Latest revision as of 20:31, 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

fabF

Mnemonic

Fatty acid biosynthesis

Synonyms

ECK1081, b1095, JW1081, cvc, fabJ, vtr, vtrB[1]

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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

24.81 minutes 

MG1655: 1151162..1152403
<gbrowseImage> name=NC_000913:1151162..1152403 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1166508..1167749
<gbrowseImage> name=NC_012967:1166508..1167749 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1055087..1056328
<gbrowseImage> name=NC_012759:1055087..1056328 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1153516..1154757
<gbrowseImage> name=NC_007779:1153516..1154757 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1206607..1207848
<gbrowseImage> name=NC_010473:1206607..1207848 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

1151165

Edman degradation

PMID:7972002[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

ΔfabF (Keio:JW1081)

deletion

deletion

PMID:16738554[3]

Shigen
CGSC9029[4]

fabF::Tn5KAN-2 (FB20101)

Insertion at nt 908 in Plus orientation

PMID:15262929[5]

E. coli Genome Project:FB20101

does not contain pKD46

fabF200

CGSC:7259

fabF202

CGSC:8804

ΔfabF759::kan

PMID:16738554[3]

CGSC:100774

fabF

deletion

Sensitivity to

increases sensitivity to bicyclomycin

PMID:21357484[6]

fig 2

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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

JW1081

Plasmid clone

Shigen

PMID:16769691[7]

Status:Clone OK

Primer 1:GCCTCTAAGCGTCGTGTAGTTGT

Primer 2:CCGATCTTTTTAAAGATCAAAGA

14C1

Kohara Phage

Genobase

PMID:3038334[8]

E9G1

Kohara Phage

Genobase

PMID:3038334[8]

zcc-282::Tn10

Linked marker

CAG18466 = CGSC7359[4]

est. P1 cotransduction: % [9]

zce-726::Tn10

Linked marker

CAG12078 = CGSC7361[4]

est. P1 cotransduction: 87% [9]

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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:EG12606

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12606

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002329

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946665

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2490

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003705

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. ↑ Siggaard-Andersen, M et al. (1994) The fabJ-encoded beta-ketoacyl-[acyl carrier protein] synthase IV from Escherichia coli is sensitive to cerulenin and specific for short-chain substrates. Proc. Natl. Acad. Sci. U.S.A. 91 11027-31 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. ↑ Kang, Y et al. (2004) Systematic mutagenesis of the Escherichia coli genome. J. Bacteriol. 186 4921-30 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. ↑ 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
  8. ↑ 8.0 8.1 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
  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).

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