poxB:Gene: Difference between revisions

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!{{table_heading_style}} |Standard name
!align=left {{table_heading_style}} |Standard name
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''poxB''  
''poxB''  
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!{{table_heading_style}} |Mnemonic
!align=left {{table_heading_style}} |Mnemonic
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!{{table_heading_style}} |Synonyms
!align=left {{table_heading_style}} |Synonyms
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''ECK0862, b0871, JW0855''<ref name='LIB:Riley_2006'/>
''ECK0862, b0871, JW0855''<ref name='LIB:Riley_2006'/>
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!Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
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MG1655
MG1655
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{{GBrowseFastaLink|ecoli|NC_000913|908554|910272|FASTA Dump}}
{{GBrowseFastaLink|ecoli|NC_000913|908554|910272|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG10754 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=EG10754 EcoCyc Sequence Dump]  
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W3110
W3110
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{{GBrowseFastaLink|ecoli_W3110|AC_000091|909753|911471|FASTA Dump}}  
{{GBrowseFastaLink|ecoli_W3110|AC_000091|909753|911471|FASTA Dump}}  
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|[[PMID:16738554]]<ref name=PMID:16738554/>
[[PMID:16738554]]<ref name=PMID:16738554/>
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[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]<br>[http://cgsc2.biology.yale.edu/Strain.php?ID=107170 CGSC8889]<ref name='LIB:cgsc'/>  
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]<br>[http://cgsc2.biology.yale.edu/Strain.php?ID=107170 CGSC8889]<ref name='LIB:cgsc'/>  
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|[[PMID:3045082]]<ref name=PMID:3045082/>
[[PMID:3045082]]<ref name=PMID:3045082/>
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[[cgscmutation:64804|CGSC:64804]]
[[cgscmutation:64804|CGSC:64804]]
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|[[PMID:8022274]]<ref name=PMID:8022274/>
[[PMID:8022274]]<ref name=PMID:8022274/>
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[[cgscmutation:64823|CGSC:64823]]
[[cgscmutation:64823|CGSC:64823]]
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|[[PMID:16738554]]<ref name=PMID:16738554/>
[[PMID:16738554]]<ref name=PMID:16738554/>
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[[cgscmutation:102414|CGSC:102414]]
[[cgscmutation:102414|CGSC:102414]]
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JW0855
JW0855
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[http://www.shigen.nig.ac.jp/ecoli/strain/askaCloneQueryAction.do?strainTypeId=9 Shigen]
[http://www.shigen.nig.ac.jp/ecoli/strain/askaCloneQueryAction.do?strainTypeId=9 Shigen]
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|[[PMID:16769691]]<ref name=PMID:16769691/>
[[PMID:16769691]]<ref name=PMID:16769691/>


Status:Clone OK
Status:Clone OK
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Primer 2:CCCCTTAGCCAGTTTGTTTTCGC  
Primer 2:CCCCTTAGCCAGTTTGTTTTCGC  
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zbh-29::Tn10
zbh-29::Tn10
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CAG18493 = [http://cgsc2.biology.yale.edu/Strain.php?ID=39400 CGSC7353]<ref name='LIB:cgsc'/>
CAG18493 = [http://cgsc2.biology.yale.edu/Strain.php?ID=39400 CGSC7353]<ref name='LIB:cgsc'/>
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est. P1 cotransduction: % <ref name='LIB:Nichols_linked_Tn'/>
est. P1 cotransduction: % <ref name='LIB:Nichols_linked_Tn'/>nnSynonyms:zbi-29::Tn10  
 
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Synonyms:zbi-29::Tn10  
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zca-1230::Tn10
zca-1230::Tn10
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CAG18478 = [http://cgsc2.biology.yale.edu/Strain.php?ID=39407 CGSC7356]<ref name='LIB:cgsc'/>
CAG18478 = [http://cgsc2.biology.yale.edu/Strain.php?ID=39407 CGSC7356]<ref name='LIB:cgsc'/>
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est. P1 cotransduction: 21% <ref name='LIB:Nichols_linked_Tn'/>
est. P1 cotransduction: 21% <ref name='LIB:Nichols_linked_Tn'/>nnSynonyms:zbj-1230::Tn10


Synonyms:zbj-1230::Tn10
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[https://asap.ahabs.wisc.edu/asap/logon.php ASAP] ([[ASAP|EcoliWikiPage]])
[https://asap.ahabs.wisc.edu/asap/logon.php ASAP] ([[ASAP|EcoliWikiPage]])
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[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0002958&formSubmitReturn=1 ASAP:ABE-0002958]
[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0002958&formSubmitReturn=1 ASAP:ABE-0002958]
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==References==
==References==
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__NOTOC__
__NOTOC__

Revision as of 18:45, 21 January 2009

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

Standard name

poxB

Mnemonic
Synonyms

ECK0862, b0871, JW0855[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

19.58 minutes 

MG1655: 910272..908554
gbrowse_img.php?coord=907554..911272&genome=ecoli&name=MG1655&trackset=0&width=300&.png

W3110

 

W3110: 911471..909753
gbrowse_img.php?coord=908753..912471&genome=ecoli_W3110&name=W3110&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

ΔpoxB (Keio:JW0855)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC8889[3]

poxB11

CGSC:10582

poxB14::kan

PMID:3045082[4]

CGSC:64804

poxB15::lacZ::CmR

PMID:8022274[5]

CGSC:64823

ΔpoxB772::kan

PMID:16738554[2]

CGSC:102414


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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

JW0855

Plasmid clone

Shigen

PMID:16769691[6]

Status:Clone OK

Primer 1:GCCAAACAAACGGTTGCAGCTTA

Primer 2:CCCCTTAGCCAGTTTGTTTTCGC

zbh-29::Tn10

Linked marker

CAG18493 = CGSC7353[3]

est. P1 cotransduction: % [7]nnSynonyms:zbi-29::Tn10

zca-1230::Tn10

Linked marker

CAG18478 = CGSC7356[3]

est. P1 cotransduction: 21% [7]nnSynonyms:zbj-1230::Tn10

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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:EG10754

EchoBASE (EcoliWiki Page)

EchoBASE:EB0747

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0871

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C1004

EcoGene (EcoliWiki Page)

EcoGene:EG10754

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:POXB

CGSC (EcoliWiki Page)

CGSC:369

ASAP (EcoliWikiPage)

ASAP:ABE-0002958


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Notes

Links

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Name URL Comments
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References

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  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. ↑ Chang, YY & Cronan, JE Jr (1988) Common ancestry of Escherichia coli pyruvate oxidase and the acetohydroxy acid synthases of the branched-chain amino acid biosynthetic pathway. J Bacteriol 170 3937-45 PubMed
  5. ↑ Chang, YY et al. (1994) Expression of Escherichia coli pyruvate oxidase (PoxB) depends on the sigma factor encoded by the rpoS(katF) gene. Mol. Microbiol. 11 1019-28 PubMed
  6. ↑ 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
  7. ↑ 7.0 7.1 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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