ynbC:Gene: Difference between revisions

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Automated update of mnemonics from EcoGene.
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!align=left |Standard name
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''ynbC''  
''ynbC''
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!align=left |Mnemonic
!align=left {{table_heading_style}} |Mnemonic
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Systematic nomenclature
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!align=left |Synonyms
!align=left {{table_heading_style}} |Synonyms
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''ECK1403, b1410, JW1407''<ref name='LIB:Riley_2006'/>
''ECK1403, b1410, JW1407''<ref name='LIB:Riley_2006'/>
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!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
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!|Feature type!!Location!!Description
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!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
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!|Database!!Accession!!Notes
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!|Name!!URL!!Comments
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[[Category:Genes in the ASKA clone collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:ynb genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:ynb genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:y genes]]

Revision as of 22:18, 25 February 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

ynbC

Mnemonic

Systematic nomenclature

Synonyms

ECK1403, b1410, JW1407[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

31.84 minutes 

MG1655: 1477162..1478919
gbrowse_img.php?coord=1477162..1478919&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 1448472..1450229
gbrowse_img.php?coord=1448472..1450229&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 1480852..1482609
gbrowse_img.php?coord=1480852..1482609&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 1567757..1569514
gbrowse_img.php?coord=1567757..1569514&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 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

ΔynbC (Keio:JW1407)

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

JW1407

Plasmid clone

Shigen

PMID:16769691[3]

Status:Clone OK

Primer 1:GCCGAAAATTCACGCATCCCTGG

Primer 2:CCGTTATCACGACGCACCGCCAT

zhj-3076::Tn10

Linked marker

CAG18640 = CGSC7453[4]

est. P1 cotransduction: 15% [5]

trg-2::Tn10

Linked marker

CAG12026 = CGSC7376[4]

est. P1 cotransduction: 55% [5]

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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:G6729

EchoBASE (EcoliWiki Page)

EchoBASE:EB3513

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1410

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C1836

EcoGene (EcoliWiki Page)

EcoGene:EG13750

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:Z2317

ASAP (EcoliWikiPage)

ASAP:ABE-0004708


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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. ↑ 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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