mlaA:Gene: Difference between revisions

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Fixing Gbrowse links (bug #119)
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!align=left {{table_heading_style}} |Synonyms
!align=left {{table_heading_style}} |Synonyms
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''ECK2340, b2346, JW2343'', vacJ<ref name='LIB:Riley_2006'/>
''ECK2340, b2346, JW2343'', vacJ<ref name='LIB:Riley_2006'/>, JW2343, vacJ''


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*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=G7216 EcoCyc]
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=G7216 EcoCyc]
{{GBrowseLink|MG1655|NC_000913|2461274|2464029|GBrowse(MG1655)}}
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{{GBrowseLink|BW2952|NC_012759|2348079|2348834|GBrowse (BW2952)}}
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{{GBrowseLink|W3110|AC_000091|2468698|2471453|GBrowse(W3110)}}  
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{{GBrowseLink|DH10B|NC_010473|2552529|2556304|GBrowse(DH10B)}}
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Primer 2:CCTTCAGAATCAATATCTTTTAA  
Primer 2:CCTTCAGAATCAATATCTTTTAA  
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[[:Category:Kohara_Phage:6F7|6F7]]
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Kohara Phage
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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=410 Genobase]
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PMID:3038334
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=G7216 ECOCYC:G7216]
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Escherichia coli str. K-12 substr. MG1655
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[http://www.ncbi.nlm.nih.gov/gene NCBI] ([[NCBI|EcoliWiki Page]])
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[http://www.ncbi.nlm.nih.gov/gene?term=945582 GeneID:945582]
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Escherichia coli str. K-12 substr. MG1655


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Revision as of 15:17, 24 September 2011

{{#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 Sequence Features Alleles and Phenotypes Genetic Interactions 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

mlaA

Mnemonic
Synonyms

ECK2340, b2346, JW2343, vacJ[1], JW2343, vacJ

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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

53.07 minutes, 53.07 minutes 

MG1655: 2463029..2462274
<gbrowseImage> name=NC_000913:2462274..2463029 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2409449..2408694
<gbrowseImage> name=NC_012967:2408694..2409449 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2348079..2348834
<gbrowseImage> name=NC_012759:2348079..2348834 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2470453..2469698
<gbrowseImage> name=AC_000091:2469698..2470453 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2554794..2554039
<gbrowseImage> name=NC_010473:2554039..2554794 source=DH10B preset=GeneLocation </gbrowseImage>

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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 Strain Genomic Location Evidence Reference Notes
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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

ΔvacJ (Keio:JW2343)

deletion

deletion

PMID:16738554[2]

Shigen


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Notes

Genetic Interactions

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Interactor Interaction Allele Score(s) Reference(s) Accessions Notes
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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

JW2343

Plasmid clone

Shigen

PMID:16769691[3]

Status:Clone OK

Primer 1:GCCAAGCTTCGCCTGTCGGCGCT

Primer 2:CCTTCAGAATCAATATCTTTTAA

6F7

Kohara Phage

Genobase

PMID:3038334[4]

zfb-223::Tn10

Linked marker

CAG18484 = CGSC7406[5]

est. P1 cotransduction: 1% [6]
Synonyms:zej-223::Tn10

zfd-1::Tn10

Linked marker

CAG18467 = CGSC7408[5]

est. P1 cotransduction: 32% [6]
Synonyms:zfb-1::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:G7216

EchoBASE (EcoliWiki Page)

EchoBASE:EB4024

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2346

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C2890

EcoGene (EcoliWiki Page)

EcoGene:EG14276

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:VACJ

ASAP (EcoliWikiPage)

ASAP:ABE-0007745

EcoCyc (EcoliWiki Page)

ECOCYC:G7216

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945582

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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<protect>

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. ↑ 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. ↑ 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
  4. ↑ Kohara, Y et al. (1987) The physical map of the whole E. coli chromosome: application of a new strategy for rapid analysis and sorting of a large genomic library. Cell 50 495-508 PubMed
  5. ↑ 5.0 5.1 CGSC: The Coli Genetics Stock Center
  6. ↑ 6.0 6.1 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).

Categories

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