ynhF: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: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}} |Standard name
!{{table_heading_style}} |Standard name
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''ynhF''
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''ynhF''  
''ynhF''  
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!{{table_heading_style}} |Mnemonic
!{{table_heading_style}} |Mnemonic
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|-
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!{{table_heading_style}} |Synonyms
!{{table_heading_style}} |Synonyms
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''b4602, ECK4411''<ref name='LIB:EcoCyc11.1'/>
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''b4602, ECK4411''<ref name='LIB:EcoCyc11.1'/>
''b4602, ECK4411''<ref name='LIB:EcoCyc11.1'/>
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!Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
!Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
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MG1655
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37.41 minutes, 37.41 minutes&nbsp;
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MG1655: 1735569..1735480<br />{{GBrowseFigureByCoord|1734480|1736569|ecoli|MG1655}}
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*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=G0-10594 EcoCyc]
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli/?q=MG1655:1734480..1736569 GBrowse(MG1655)]
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*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli/?plugin=FastaDumper&name=MG1655:1735480..1735569&plugin_action=Go FASTA Dump]
*[http://biocyc.org/ECOLI/sequence?object=G0-10594 EcoCyc Sequence Dump]
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*[http://biocyc.org/ECOLI/sequence?object=G0-10594 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=G0-10594 EcoCyc Sequence Dump]  
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==Sequence Features==
==Sequence Features==
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!Feature type!!Location!!Description
!Feature type!!Location!!Description
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==Alleles and Phenotypes==
==Alleles and Phenotypes==
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!Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability
!Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
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[[PMID:1673855]]<ref name=PMID:1673855/>
[[PMID:16738554]]<ref name=PMID:16738554/>
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[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]  
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]
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==Genetic Resources==
==Genetic Resources==
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!Resource!!Resource Type!!Source!!Notes/Reference
!Resource!!Resource Type!!Source!!Notes/Reference
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[[yddE:Gene|zdd-235::Tn10]]
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Linked marker
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CAG18461 = [http://cgsc2.biology.yale.edu/Strain.php?ID=39848 CGSC7378]<ref name='LIB:cgsc'/>
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est. P1 cotransduction: % <ref name='LIB:Nichols_linked_Tn'/>


Synonyms:zdc-235::Tn10
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Plasmid clone
zdi-925::Tn10
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Linked marker
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[http://www.shigen.nig.ac.jp/ecoli/strain/askaCloneQueryAction.do?strainTypeId=9 Shigen]
CAG12151 = [http://cgsc2.biology.yale.edu/Strain.php?ID=39862 CGSC7385]<ref name='LIB:cgsc'/>
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[[PMID:16769691]]<ref name=PMID:16769691/>
est. P1 cotransduction: 17% <ref name='LIB:Nichols_linked_Tn'/>
 
Status:


Primer 1:
Synonyms:zdh-925::Tn10
 
Primer 2:  
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Primer 2:  
Primer 2:  
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==Accessions in Other Databases==
==Accessions in Other Databases==
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!Database!!Accession!!Notes
!Database!!Accession!!Notes
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=G0-10594 EcoCyc:G0-10594] 
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[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
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[http://ecogene.org/geneinfo.php?eg_id=EG14016 EcoGene:EG14016] 
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==Links==
==Links==
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__NOTOC__
__NOTOC__
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===Categories===
[[Category:Gene List:MG1655]]
[[Category:Genes in the Keio knockout collection]]
[[Category:Genes in the ASKA clone collection]]

Revision as of 22:06, 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

ynhF

Mnemonic
Synonyms

b4602, ECK4411[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

37.41 minutes, 37.41 minutes 

MG1655: 1735569..1735480
gbrowse_img.php?coord=1734480..1736569&genome=ecoli&name=MG1655&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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Notes

Alleles and Phenotypes

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

ΔynhF (Keio:)

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

zdd-235::Tn10

Linked marker

CAG18461 = CGSC7378[3]

est. P1 cotransduction: % [4]

Synonyms:zdc-235::Tn10

zdi-925::Tn10

Linked marker

CAG12151 = CGSC7385[3]

est. P1 cotransduction: 17% [4]

Synonyms:zdh-925::Tn10

Plasmid clone

Shigen

PMID:16769691[5]

Status:

Primer 1:

Primer 2:

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Notes

Accessions in Other Databases

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Database Accession Notes

EcoCyc (EcoliWiki Page)

EcoCyc:G0-10594

EcoGene (EcoliWiki Page)

EcoGene:EG14016

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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. ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  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. ↑ 3.0 3.1 CGSC: The Coli Genetics Stock Center
  4. ↑ 4.0 4.1 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).
  5. ↑ 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


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