nirC:Gene: Difference between revisions

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!|Feature type!!Location!!Description
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes


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Revision as of 22:55, 10 May 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

nirC

Mnemonic

Nitrite reductase

Synonyms

ECK3355, b3367, JW3330[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

75.33 minutes 

MG1655: 3495025..3495831
gbrowse_img.php?coord=3495025..3495831&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 3424908..3425714
gbrowse_img.php?coord=3424908..3425714&genome=REL606&name=NC_012967&trackset=0&width=300&.png

BW2952

NC_012759: 3382182..3382988
gbrowse_img.php?coord=3382182..3382988&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

W3110

 

W3110: 4143413..4142607
gbrowse_img.php?coord=4142607..4143413&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 3592770..3593576
gbrowse_img.php?coord=3592770..3593576&genome=ecoli_DH10B&name=DH10B&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 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

ΔnirC (Keio:JW3330)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC10490[3]

ΔnirC775::kan

PMID:16738554[2]

CGSC:102080


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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

JW3330

Plasmid clone

Shigen

PMID:16769691[4]

Status:Clone OK

Primer 1:GCCTTTACAGACACTATTAATAA

Primer 2:CCACCGGCAGCCGTTTCAGTTTG

smg-3082::Tn10

Linked marker

CAG12071 = CGSC7444[3]

est. P1 cotransduction: 2% [5]
Synonyms:zhb-3082::Tn10, zhd-3082::Tn10

zhf-3084::Tn10

Linked marker

CAG18456 = CGSC7576[3]

est. P1 cotransduction: 76% [5]
Synonyms:zhe-3084::Tn10nnnCAG18456 also carries cysG0 (CGSC).

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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:EG10654

EchoBASE (EcoliWiki Page)

EchoBASE:EB0648

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3367

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C4143

EcoGene (EcoliWiki Page)

EcoGene:EG10654

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:NIRC

CGSC (EcoliWiki Page)

CGSC:452

ASAP (EcoliWikiPage)

ASAP:ABE-0011008


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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. ↑ 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
  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
  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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