gatY:Gene

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Nomenclature Location(s) and DNA Sequence Sequence Features Alleles and Phenotypes Genetic Interactions Genetic Resources Accessions Links References Suggestions

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Nomenclature

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

Standard name

gatY

Mnemonic

Galactitol

Synonyms

ECK2089, b2096, JW5343, yegF[1], yegF

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Notes

Location(s) and DNA Sequence

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<protect> 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

46.86 minutes 

MG1655: 2175226..2174372
<gbrowseImage> name=NC_000913:2174372..2175226 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2131341..2130487
<gbrowseImage> name=NC_012967:2130487..2131341 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2066855..2067709
<gbrowseImage> name=NC_012759:2066855..2067709 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2180538..2179684
<gbrowseImage> name=NC_007779:2179684..2180538 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2266234..2265380
<gbrowseImage> name=NC_010473:2265380..2266234 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

2174372

Edman degradation

PMID:10094700[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

ΔgatY (Keio:JW5343)

deletion

deletion

PMID:16738554[3]

Shigen
CGSC11329[4]

gatY::Tn5KAN-2 (FB20615)

Insertion at nt 298 in Minus orientation

PMID:15262929[5]

E. coli Genome Project:FB20615

contains pKD46

gatY::Tn5KAN-2 (FB20616)

Insertion at nt 298 in Minus orientation

PMID:15262929[5]

E. coli Genome Project:FB20616

does not contain pKD46

zbd-3104::Tn10

Insertion at 2,175,215 bp in MG1655 (NC_000913)

adapted from Nichols et al.[6]

CAG12021 = CGSC7344[4]

Synonyms: zbc-3105::Tn10, zbd-3105::Tn10

ΔgatY721::kan

PMID:16738554[3]

CGSC:101112


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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

JW5343

Plasmid clone

Shigen

PMID:16769691[7]

Status:Clone OK

Primer 1:GCCTACGTGGTATCGACAAAGCA

Primer 2:CCTGCCCTGCCCTCGCAGCCACA

8F4

Kohara Phage

Genobase

PMID:3038334[8]

zef-3129::Tn10

Linked marker

CAG12099 = CGSC7397[4]

est. P1 cotransduction: % [6]
Synonyms:zee-3129::Tn10

napA722::Tn10

Linked marker

CAG12098 = CGSC7400[4]

est. P1 cotransduction: % [6]
Synonyms:zeg-722, zei-722::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:EG12419

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12419

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002278

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946636

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2318

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006938

Escherichia coli str. K-12 substr. MG1655

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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. ↑ Blankenhorn, D et al. (1999) Acid- and base-induced proteins during aerobic and anaerobic growth of Escherichia coli revealed by two-dimensional gel electrophoresis. J. Bacteriol. 181 2209-16 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 4.3 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 6.2 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).
  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. ↑ 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

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