thrA:Gene: Difference between revisions

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!{{table_heading_style}} |Standard name
!align=left {{table_heading_style}} |Standard name
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''thrA''  
''thrA''  
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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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''ECK0002, b0002, JW0001, Hs, thrA1, thrA2, thrD''<ref name='LIB:Riley_2006'/>
''ECK0002, b0002, JW0001, Hs, thrA1, thrA2, thrD''<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|337|2799|FASTA Dump}}
{{GBrowseFastaLink|ecoli|NC_000913|337|2799|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG10998 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=EG10998 EcoCyc Sequence Dump]  
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W3110
W3110
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{{GBrowseFastaLink|ecoli_W3110|AC_000091|337|2799|FASTA Dump}}  
{{GBrowseFastaLink|ecoli_W3110|AC_000091|337|2799|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]
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]
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|[[PMID:2540407]]<ref name=PMID:2540407/>[[PMID:9829956]]<ref name=PMID:9829956/>
[[PMID:2540407]]<ref name=PMID:2540407/> [[PMID:9829956]]<ref name=PMID:9829956/>
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[[cgscmutation:38986|CGSC:38986]]
[[cgscmutation:38986|CGSC:38986]]
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JW0001
JW0001
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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:CCGACTCCTAACTTCCATGAGAG  
Primer 2:CCGACTCCTAACTTCCATGAGAG  
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[[carB:Gene|carB96::Tn10]]
[[carB:Gene|carB96::Tn10]]
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CAG12093 = [http://cgsc2.biology.yale.edu/Strain.php?ID=38008 CGSC7322]<ref name='LIB:cgsc'/>
CAG12093 = [http://cgsc2.biology.yale.edu/Strain.php?ID=38008 CGSC7322]<ref name='LIB:cgsc'/>
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est. P1 cotransduction: 28% <ref name='LIB:Nichols_linked_Tn'/>
est. P1 cotransduction: 28% <ref name='LIB:Nichols_linked_Tn'/>nnSynonyms:car-96::Tn10  
 
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[[mdoB:Gene|mdoB202::Tn10]]
[[mdoB:Gene|mdoB202::Tn10]]
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CAG18430 = [http://cgsc2.biology.yale.edu/Strain.php?ID=40618 CGSC7488]<ref name='LIB:cgsc'/>
CAG18430 = [http://cgsc2.biology.yale.edu/Strain.php?ID=40618 CGSC7488]<ref name='LIB:cgsc'/>
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est. P1 cotransduction: 12% <ref name='LIB:Nichols_linked_Tn'/>
est. P1 cotransduction: 12% <ref name='LIB:Nichols_linked_Tn'/>nnSynonyms:zjj-202::Tn10, zji-202::Tn10


Synonyms:zjj-202::Tn10, zji-202::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=0000008&formSubmitReturn=1 ASAP:ABE-0000008]
[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0000008&formSubmitReturn=1 ASAP:ABE-0000008]
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==References==
==References==
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__NOTOC__
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Revision as of 18:30, 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

thrA

Mnemonic
Synonyms

ECK0002, b0002, JW0001, Hs, thrA1, thrA2, thrD[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

0.01 minutes 

MG1655: 337..2799
gbrowse_img.php?coord=0..3799&genome=ecoli&name=MG1655&trackset=0&width=300&.png

W3110

 

W3110: 337..2799
gbrowse_img.php?coord=0..3799&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

ΔthrA (Keio:JW0001)

deletion

deletion

PMID:16738554[2]

Shigen

thrA34::Tn10

Insertion at 425 bp in MG1655 (NC_000913)

adapted from Nichols et al.

thrA34::Tn10

CGSC:4834

thrA1101

CGSC:5343

thrA1015

CGSC:5352

thrA1100

CGSC:5879

thrA3092::Tn10kan

PMID:2540407[3]PMID:9829956[4]

CGSC:38986

thrA1016

CGSC:73731


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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

JW0001

Plasmid clone

Shigen

PMID:16769691[5]

Status:Clone OK

Primer 1:GCCCGAGTGTTGAAGTTCGGCGG

Primer 2:CCGACTCCTAACTTCCATGAGAG

carB96::Tn10

Linked marker

CAG12093 = CGSC7322[6]

est. P1 cotransduction: 28% [7]nnSynonyms:car-96::Tn10

mdoB202::Tn10

Linked marker

CAG18430 = CGSC7488[6]

est. P1 cotransduction: 12% [7]nnSynonyms:zjj-202::Tn10, zji-202::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:EG10998

EchoBASE (EcoliWiki Page)

EchoBASE:EB0991

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0002

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C0003

EcoGene (EcoliWiki Page)

EcoGene:EG10998

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:THRA

CGSC (EcoliWiki Page)

CGSC:111

ASAP (EcoliWikiPage)

ASAP:ABE-0000008


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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. ↑ Singer, M et al. (1989) A collection of strains containing genetically linked alternating antibiotic resistance elements for genetic mapping of Escherichia coli. Microbiol. Rev. 53 1-24 PubMed
  4. ↑ Nichols, BP et al. (1998) Sequence analysis of Tn10 insertion sites in a collection of Escherichia coli strains used for genetic mapping and strain construction. J. Bacteriol. 180 6408-11 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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