putA:Gene: Difference between revisions

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Revision as of 20:19, 17 August 2011

{{#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

putA

Mnemonic

Proline utilization

Synonyms

ECK1005, b1014, JW0999, poaA, putC, proline utilization A[1][2]

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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

23.15 minutes 

MG1655: 1078105..1074143
<gbrowseImage> name=NC_000913:1074143..1078105 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1095166..1091204
<gbrowseImage> name=NC_012967:1091204..1095166 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 977111..981073
<gbrowseImage> name=NC_012759:977111..981073 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1079304..1075342
<gbrowseImage> name=AC_000091:1075342..1079304 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1132033..1128071
<gbrowseImage> name=NC_010473:1128071..1132033 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
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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

ΔputA (Keio:JW0999)

deletion

deletion

PMID:16738554[3]

Shigen
CGSC8981[4]

putA11

CGSC:12047

putA1::Tn5

PMID:7016835[5]

CGSC:89583

ΔputA758::kan

PMID:16738554[3]

CGSC:102550


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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

JW0999

Plasmid clone

Shigen

PMID:16769691[6]

Status:Clone OK

Primer 1:gccGGAACCACCACCATGGGGGTTAAGCTG

Primer 2:ccACCTATAGTCATTAAGCTGGCGTTACCG

zcc-282::Tn10

Linked marker

CAG18466 = CGSC7359[4]

est. P1 cotransduction: 67% [7]

zce-726::Tn10

Linked marker

CAG12078 = CGSC7361[4]

est. P1 cotransduction: % [7]

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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:EG10801

EchoBASE (EcoliWiki Page)

EchoBASE:EB0794

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1014

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C1151

EcoGene (EcoliWiki Page)

EcoGene:EG10801

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:PUTA

CGSC (EcoliWiki Page)

CGSC:333

ASAP (EcoliWikiPage)

ASAP:ABE-0003424


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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. ↑ EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  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. ↑ Wood, JM (1981) Genetics of L-proline utilization in Escherichia coli. J. Bacteriol. 146 895-901 PubMed
  6. ↑ 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
  7. ↑ 7.0 7.1 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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