yaaW:Gene: Difference between revisions

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Revision as of 23:58, 5 March 2010

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Nomenclature Location(s) and DNA Sequence Alleles and Phenotypes 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

yaaW

Mnemonic
Synonyms

ECK0011, b0011, JW0010, htpY[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

0.23 minutes 

MG1655: 11356..10643
gbrowse_img.php?coord=9643..12356&genome=ecoli&name=MG1655&trackset=0&width=300&.png

W3110

 

W3110: 11356..10643
gbrowse_img.php?coord=9643..12356&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 11356..10643
gbrowse_img.php?coord=9217..12782&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

BW2952

NC_012759: 10643..11356
gbrowse_img.php?coord=10643..11356&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

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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 Location Description
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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

ΔyaaW (Keio:JW0010)

deletion

deletion

PMID:16738554[2]

Shigen


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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

JW0010

Plasmid clone

Shigen

PMID:16769691[3]

Status:Clone OK

Primer 1:GCCAATGTTAATTACCTGAATGA

Primer 2:CCGACCTGAGTGGCGCTAACCAT

thrA34::Tn10

Linked marker

CAG18442 = CGSC7320[4]

est. P1 cotransduction: 69% [5]
Synonyms:thr-34::Tn10

carB96::Tn10

Linked marker

CAG12093 = CGSC7322[4]

est. P1 cotransduction: 45% [5]
Synonyms:car-96::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 (EcoliWiki Page)

EcoCyc:G6082

EchoBASE (EcoliWiki Page)

EchoBASE:EB4086

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0011

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C0016

EcoGene (EcoliWiki Page)

EcoGene:EG14340

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:Z0011

ASAP (EcoliWikiPage)

ASAP:ABE-0000037


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Notes

Links

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Name URL Comments
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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. ↑ 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
  3. ↑ 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
  4. ↑ 4.0 4.1 CGSC: The Coli Genetics Stock Center
  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).

Categories

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