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arfA:Gene

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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

arfA

Mnemonic

Systematic nomenclature

Synonyms

yhdL, ECK3278, b4550, JW3253[1], JW3253

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

74.07 minutes 

MG1655: 3436671..3436453


REL606

NC_012967: 3366554..3366336


BW2952

NC_012759: 3323610..3323828


W3110

 

W3110: 4201767..4201985


DH10B

DH10B: 3534416..3534198


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

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

ΔyhdL (Keio:JW3253)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC10454[3]

ΔyhdL728::kan

PMID:16738554[2]

CGSC:105150


Notes

Genetic Interactions

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

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

JW3253

Plasmid clone

Shigen

PMID:16769691[4]

Status:Clone OK

Primer 1:GCCAGTCGATATCAGCATACTAA

Primer 2:CCACAAGCGCCTGAAAGCAGAAG

smg-3082::Tn10

Linked marker

CAG12071 = CGSC7444[3]

est. P1 cotransduction: 77% [5]
Synonyms:zhb-3082::Tn10, zhd-3082::Tn10

zhf-3084::Tn10

Linked marker

CAG18456 = CGSC7576[3]

est. P1 cotransduction: 2% [5]
Synonyms:zhe-3084::Tn10nnnCAG18456 also carries cysG0 (CGSC).

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:G0-10465

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11968

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120016317

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:1450289

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1911

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0285071

Escherichia coli str. K-12 substr. MG1655

Notes

Links

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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. 2.0 2.1 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 EcoliWiki page
  3. 3.0 3.1 3.2 CGSC: The Coli Genetics Stock Center
  4. 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 EcoliWiki page
  5. 5.0 5.1 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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