yhaM:Gene: Difference between revisions

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{{Tab|Quickview|yhaM}}{{Tab On|Gene|yhaM}}{{Tab|Gene Product(s)|yhaM}}{{Tab|Expression|yhaM}}{{Tab|Evolution|yhaM}}{{Tab|On One Page|yhaM}}{{TabsBottom}}
{{Tab|Quickview|yhaM}}{{Tab On|Gene|yhaM}}{{Tab|Gene Product(s)|yhaM}}{{Tab|Expression|yhaM}}{{Tab|Evolution|yhaM}}{{Tab|On One Page|yhaM}}{{TabsBottom}}
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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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''ECK3099, b4470, JW5518, yhaN, b3109 (obsolete), b3108 (obsolete)''<ref name='LIB:Riley_2006'/><ref name='LIB:EcoCyc10.6'/>
''ECK3099, b4470, JW5518, yhaN, b3109 (obsolete), b3108 (obsolete)''<ref name='LIB:Riley_2006'/><ref name='LIB:EcoCyc10.6'/>
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==Location(s) and DNA Sequence==
==Location(s) and DNA Sequence==
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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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*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli_W3110/?plugin=FastaDumper&name=W3110:3253997..3255307&plugin_action=Go FASTA Dump]  
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli_W3110/?plugin=FastaDumper&name=W3110:3253997..3255307&plugin_action=Go FASTA Dump]  
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==Sequence Features==
==Sequence Features==
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!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!!CGSC Mutation ID #
!Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability
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&Delta;yhaM (Keio:JW5518)
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deletion
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deletion
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[[PMID:1673855]]<ref name=PMID:1673855/>
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[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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JW5518
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Plasmid clone
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[http://www.shigen.nig.ac.jp/ecoli/strain/askaCloneQueryAction.do?strainTypeId=9 Shigen]
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[[PMID:16769691]]<ref name=PMID:16769691/>
Status:Clone OK
Primer 1:GCCTTTGATTCGACTTTAAATCC
Primer 2:CCTCTGGCCTTGCTCGCCATAAT
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==Accessions in Other Databases==
==Accessions in Other Databases==
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==Links==
==Links==
 
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==References==
==References==
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Revision as of 13:06, 27 July 2007

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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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Standard name

yhaM

Mnemonic
Synonyms

ECK3099, b4470, JW5518, yhaN, b3109 (obsolete), b3108 (obsolete)[1][2]

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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

70.12 minutes 

MG1655: 3254673..3253363
gbrowse_img.php?coord=3252363..3255673&genome=ecoli&name=MG1655&trackset=0&width=300&.png

W3110

 

W3110: 3255307..3253997
gbrowse_img.php?coord=3252997..3256307&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

ΔyhaM (Keio:JW5518)

deletion

deletion

PMID:1673855[3]

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

JW5518

Plasmid clone

Shigen

PMID:16769691[4]

Status:Clone OK

Primer 1:GCCTTTGATTCGACTTTAAATCC

Primer 2:CCTCTGGCCTTGCTCGCCATAAT

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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:G7622

EchoBASE (EcoliWiki Page)

EchoBASE:EB2608

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3108

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C3867

EcoGene (EcoliWiki Page)

EcoGene:EG12752

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:Z4462

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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. ↑ 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. ↑ Schultz, RM (1991) The role of metalloproteinases in tumor cell metastasis. Cancer Treat. Res. 54 119-33 PubMed
  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


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