dapF:Gene: Difference between revisions

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|{{Sub}}[[Talk:{{PAGENAMEE}}| Suggestions]]
|{{Sub}}[[Talk:{{PAGENAMEE}}| Suggestions]]
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[[Category:Gene List:MG1655]][[Category:Gene List:W3110]][[Category:Genes in the Keio knockout collection]][[Category:Genes in the ASKA clone collection]]
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==Nomenclature==
==Nomenclature==
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!{{table_heading_style}} |Mnemonic
!{{table_heading_style}} |Mnemonic
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DiAminoPimelate<ref name='LIB:EcoGene'/>
 
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!{{table_heading_style}} |Synonyms
!{{table_heading_style}} |Synonyms
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''ECK3804, b3809, JW5592''<ref name='LIB:Riley_2006'/>
''ECK3804, b3809, JW5592''<ref name='LIB:Riley_2006'/>
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The Tn10 in CAG13491 is inserted in the metE regulatory region, but causes a Met- phenotype.  
The Tn10 in CAG13491 is inserted in the metE regulatory region, but causes a Met- phenotype.  
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__NOTOC__
__NOTOC__
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===Categories===
[[Category:Gene List:MG1655]]
[[Category:Gene List:W3110]]
[[Category:Genes in the Keio knockout collection]]
[[Category:Genes in the ASKA clone collection]]

Revision as of 18:49, 2 August 2007

{{#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 Alleles and Phenotypes Genetic Resources Accessions Links References Suggestions

Nomenclature

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Standard name

dapF

Mnemonic
Synonyms

ECK3804, b3809, JW5592[1]

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

Notes

Location(s) and DNA Sequence

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Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

86.06 minutes, 86.06 minutes 

MG1655: 3992785..3993609
gbrowse_img.php?coord=3991785..3994609&genome=ecoli&name=MG1655&trackset=0&width=300&.png

W3110

 

W3110: 3641919..3641095
gbrowse_img.php?coord=3640095..3642919&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

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See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Notes

Sequence Features

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Feature type Location Description
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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Notes

Alleles and Phenotypes

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Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

ΔdapF (Keio:JW5592)

deletion

deletion

PMID:16738554[2]

Shigen

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Notes

Genetic Resources

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Resource Resource Type Source Notes/Reference

JW5592

Plasmid clone

Shigen

PMID:16769691[3]

Status:Clone OK

Primer 1:GCCCAGTTCTCGAAAATGCATGG

Primer 2:CCTAGATGAATAAATCCGTCGTA

ilvD500::Tn10

Linked marker

CAG18431 = CGSC7462[4]

est. P1 cotransduction: 19% [5]

Synonyms:ilv500::Tn10

metEo-3079::Tn10

Linked marker

CAG18491 = CGSC7464[4]

est. P1 cotransduction: 57% [5]

Synonyms:metE3079::Tn10


The Tn10 in CAG13491 is inserted in the metE regulatory region, but causes a Met- phenotype.

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Notes

Accessions in Other Databases

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Database Accession Notes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10209

EchoBASE (EcoliWiki Page)

EchoBASE:EB0205

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3809

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C4730

EcoGene (EcoliWiki Page)

EcoGene:EG10209

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:DAPF

CGSC (EcoliWiki Page)

CGSC:17713

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Notes

Links

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Name URL Comments
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See Help:Links_table for how to enter or edit information in this section of EcoliWiki.

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).


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