ynbB:Gene: Difference between revisions

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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=268 Genobase]
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=268 Genobase]
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PMID:3038334
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[[:Category:Kohara_Phage:3C9|3C9]]
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Kohara Phage
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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=269 Genobase]
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PMID:3038334  
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est. P1 cotransduction: 53% <ref name='LIB:Nichols_linked_Tn'/>  
est. P1 cotransduction: 53% <ref name='LIB:Nichols_linked_Tn'/>  
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[[:Category:Kohara_Phage:3C9|3C9]]
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Kohara Phage
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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=269 Genobase]
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PMID:3038334


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!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=G6728 EcoCyc:G6728]
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[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
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[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB3512 EchoBASE:EB3512]
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[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])
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[http://chase.ou.edu/macro/searchlink.php?bnum=b1409 EcoliGenExpDB:b1409]
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[http://BioCyc.org/ECOL199310/ ECOL199310CYC] ([[ECOL199310CYC|EcoliWiki Page]])
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[http://BioCyc.org/ECOL199310/new-image?object=C1835 ECOL199310CYC:C1835]
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[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
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[http://ecogene.org/geneinfo.php?eg_id=EG13749 EcoGene:EG13749]
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[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])
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[http://BioCyc.org/ECOO157/new-image?object=Z2318 ECOO157CYC:Z2318]
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[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=0004706&formSubmitReturn=1 ASAP:ABE-0004706]
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Revision as of 22:33, 21 September 2011

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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

ynbB

Mnemonic

Systematic nomenclature

Synonyms

ECK1402, b1409, JW1406[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

31.82 minutes 

MG1655: 1476250..1477146
<gbrowseImage> name=NC_000913:1476250..1477146 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1447560..1448456
<gbrowseImage> name=NC_012967:1447560..1448456 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1368309..1369205
<gbrowseImage> name=NC_012759:1368309..1369205 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1479940..1480836
<gbrowseImage> name=AC_000091:1479940..1480836 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1566845..1567741
<gbrowseImage> name=NC_010473:1566845..1567741 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

ΔynbB (Keio:JW1406)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC9236[3]

ΔynbB770::kan

PMID:16738554[2]

CGSC:105774


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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

JW1406

Plasmid clone

Shigen

PMID:16769691[4]

Status:Clone OK

Primer 1:GCCCTGGAAAAATCTCTGGCAAC

Primer 2:CCGTAACAGCAGTAGCGTATAAA

7F12

Kohara Phage

Genobase

PMID:3038334[5]

3C9

Kohara Phage

Genobase

PMID:3038334[5]

zhj-3076::Tn10

Linked marker

CAG18640 = CGSC7453[3]

est. P1 cotransduction: 16% [6]

trg-2::Tn10

Linked marker

CAG12026 = CGSC7376[3]

est. P1 cotransduction: 53% [6]

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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
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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. ↑ 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. ↑ 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
  5. ↑ 5.0 5.1 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
  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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