trxA:Gene: Difference between revisions

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{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
 
|-
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!{{table_heading_style}} |Standard name
!align=left {{table_heading_style}} |Standard name
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''trxA''  
''trxA''  
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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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''ECK3773, b3781, JW5856, fipA, tsnC, dasC''<ref name='LIB:Riley_2006'/>
''ECK3773, b3781, JW5856, fipA, tsnC, dasC''<ref name='LIB:Riley_2006'/>
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===Notes===
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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|3963784|3964113|FASTA Dump}}
{{GBrowseFastaLink|ecoli|NC_000913|3963784|3964113|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG11031 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=EG11031 EcoCyc Sequence Dump]  
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W3110
W3110
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{{GBrowseFastaLink|ecoli_W3110|AC_000091|3670591|3670920|FASTA Dump}}  
{{GBrowseFastaLink|ecoli_W3110|AC_000091|3670591|3670920|FASTA Dump}}  
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===Notes===
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====Notes====
====Notes====
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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]
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]
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|[[PMID:337124]]<ref name=PMID:337124/>[[PMID:3881756]]<ref name=PMID:3881756/>
[[PMID:337124]]<ref name=PMID:337124/> [[PMID:3881756]]<ref name=PMID:3881756/>
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[[cgscmutation:5031|CGSC:5031]]
[[cgscmutation:5031|CGSC:5031]]
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temperature sensitive
temperature sensitive
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|[[PMID:3881756]]<ref name=PMID:3881756/>
[[PMID:3881756]]<ref name=PMID:3881756/>
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[[cgscmutation:88597|CGSC:88597]]
[[cgscmutation:88597|CGSC:88597]]
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===Notes===
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JW5856
JW5856
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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:CCtGCCAGGTTAGCGTCGAGGAA  
Primer 2:CCtGCCAGGTTAGCGTCGAGGAA  
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[[ilvD:Gene|ilvD500::Tn10]]
[[ilvD:Gene|ilvD500::Tn10]]
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CAG18431 = [http://cgsc2.biology.yale.edu/Strain.php?ID=40338 CGSC7462]<ref name='LIB:cgsc'/>
CAG18431 = [http://cgsc2.biology.yale.edu/Strain.php?ID=40338 CGSC7462]<ref name='LIB:cgsc'/>
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est. P1 cotransduction: 69% <ref name='LIB:Nichols_linked_Tn'/>
est. P1 cotransduction: 69% <ref name='LIB:Nichols_linked_Tn'/>nnSynonyms:ilv500::Tn10  
 
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Synonyms:ilv500::Tn10  
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metEo-3079::Tn10
metEo-3079::Tn10
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CAG18491 = [http://cgsc2.biology.yale.edu/Strain.php?ID=40350 CGSC7464]<ref name='LIB:cgsc'/>
CAG18491 = [http://cgsc2.biology.yale.edu/Strain.php?ID=40350 CGSC7464]<ref name='LIB:cgsc'/>
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est. P1 cotransduction: 14% <ref name='LIB:Nichols_linked_Tn'/>
est. P1 cotransduction: 14% <ref name='LIB:Nichols_linked_Tn'/>nnSynonyms:metE3079::Tn10 nnnThe Tn10 in CAG13491 is inserted in the metE regulatory region, but causes a Met- phenotype.
 
Synonyms:metE3079::Tn10  
 


The Tn10 in CAG13491 is inserted in the metE regulatory region, but causes a Met- phenotype.
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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=0012357&formSubmitReturn=1 ASAP:ABE-0012357]
[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0012357&formSubmitReturn=1 ASAP:ABE-0012357]
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<noinclude><protect>
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==References==
==References==
{{BacktoTop}}
{{BacktoTop}}
{{RefHelp}}
 
<references/>
<references/>
__NOTOC__
__NOTOC__

Revision as of 21:35, 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

trxA

Mnemonic
Synonyms

ECK3773, b3781, JW5856, fipA, tsnC, dasC[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

85.43 minutes, 85.43 minutes 

MG1655: 3963784..3964113
gbrowse_img.php?coord=3962784..3965113&genome=ecoli&name=MG1655&trackset=0&width=300&.png

W3110

 

W3110: 3670920..3670591
gbrowse_img.php?coord=3669591..3671920&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

ΔtrxA (Keio:JW5856)

deletion

deletion

PMID:16738554[2]

Shigen

trxA1(Am)

PMID:337124[3]PMID:3881756[4]

CGSC:5031

amber (UAG) mutation

ΔtrxA307

CGSC:10957

trxA11(ts)

temperature sensitive

PMID:3881756[4]

CGSC:88597


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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

JW5856

Plasmid clone

Shigen

PMID:16769691[5]

Status:Clone OK

Primer 1:GCCAGCGATAAAATTATTCACCT

Primer 2:CCtGCCAGGTTAGCGTCGAGGAA

ilvD500::Tn10

Linked marker

CAG18431 = CGSC7462[6]

est. P1 cotransduction: 69% [7]nnSynonyms:ilv500::Tn10

metEo-3079::Tn10

Linked marker

CAG18491 = CGSC7464[6]

est. P1 cotransduction: 14% [7]nnSynonyms:metE3079::Tn10 nnnThe Tn10 in CAG13491 is inserted in the metE regulatory region, but causes a Met- phenotype.

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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:EG11031

EchoBASE (EcoliWiki Page)

EchoBASE:EB1024

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3781

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C4701

EcoGene (EcoliWiki Page)

EcoGene:EG11031

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:TRXA

CGSC (EcoliWiki Page)

CGSC:65

ASAP (EcoliWikiPage)

ASAP:ABE-0012357


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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. ↑ 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. ↑ Mark, DF et al. (1977) Genetic mapping of trxA, a gene affecting thioredoxin in Escherichia coli K12. Mol. Gen. Genet. 155 145-52 PubMed
  4. ↑ 4.0 4.1 Russel, M & Model, P (1985) Thioredoxin is required for filamentous phage assembly. Proc. Natl. Acad. Sci. U.S.A. 82 29-33 PubMed
  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
  6. ↑ 6.0 6.1 CGSC: The Coli Genetics Stock Center
  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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