sufD:Gene: Difference between revisions

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!Database!!Accession!!Notes
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])  
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])  
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=G6907 EcoCyc:G6907]
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=G6907 EcoCyc:G6907]
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[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])  
[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])  
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[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB3721 EchoBASE:EB3721]
[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB3721 EchoBASE:EB3721]
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[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])  
[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])  
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[http://chase.ou.edu/macro/searchlink.php?bnum=b1681 EcoliGenExpDB:b1681]
[http://chase.ou.edu/macro/searchlink.php?bnum=b1681 EcoliGenExpDB:b1681]
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[http://BioCyc.org/ECOL199310/ ECOL199310CYC] ([[ECOL199310CYC|EcoliWiki Page]])  
[http://BioCyc.org/ECOL199310/ ECOL199310CYC] ([[ECOL199310CYC|EcoliWiki Page]])  
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[http://BioCyc.org/ECOL199310/new-image?object=C2076 ECOL199310CYC:C2076]
[http://BioCyc.org/ECOL199310/new-image?object=C2076 ECOL199310CYC:C2076]
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[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])  
[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])  
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[http://ecogene.org/geneinfo.php?eg_id=EG13963 EcoGene:EG13963]
[http://ecogene.org/geneinfo.php?eg_id=EG13963 EcoGene:EG13963]
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[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])  
[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])  
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[http://BioCyc.org/ECOO157/new-image?object=YNHC ECOO157CYC:YNHC]
[http://BioCyc.org/ECOO157/new-image?object=YNHC ECOO157CYC:YNHC]
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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=0005617&formSubmitReturn=1 ASAP:ABE-0005617] 
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Revision as of 23:26, 15 September 2008

{{#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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Standard name

sufD

Mnemonic
Synonyms

ECK1677, b1681, JW1671, ynhC, f423[1][2]

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

Notes

Location(s) and DNA Sequence

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Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

37.9 minutes 

MG1655: 1759815..1758544
gbrowse_img.php?coord=1757544..1760815&genome=ecoli&name=MG1655&trackset=0&width=300&.png

W3110

 

W3110: 1763505..1762234
gbrowse_img.php?coord=1761234..1764505&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

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See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Notes

Sequence Features

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Feature type Location Description
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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Notes

Alleles and Phenotypes

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Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

ΔsufD (Keio:JW1671)

deletion

deletion

PMID:16738554[3]

Shigen

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Notes

Genetic Resources

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Resource Resource Type Source Notes/Reference

JW1671

Plasmid clone

Shigen

PMID:16769691[4]

Status:Clone OK

Primer 1:GCCGCTGGCTTACCGAACAGCAG

Primer 2:CCTCTTGCACCTCCTGGCAGCCG

zdd-235::Tn10

Linked marker

CAG18461 = CGSC7378[5]

est. P1 cotransduction: % [6]

Synonyms:zdc-235::Tn10

zdi-925::Tn10

Linked marker

CAG12151 = CGSC7385[5]

est. P1 cotransduction: 51% [6]

Synonyms:zdh-925::Tn10

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Notes

Accessions in Other Databases

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Database Accession Notes

EcoCyc (EcoliWiki Page)

EcoCyc:G6907

EchoBASE (EcoliWiki Page)

EchoBASE:EB3721

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1681

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C2076

EcoGene (EcoliWiki Page)

EcoGene:EG13963

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:YNHC

ASAP (EcoliWikiPage)

ASAP:ABE-0005617


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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Notes

Links

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Name URL Comments
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See Help:Links_table for how to enter or edit information in this section of EcoliWiki.

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. ↑ EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 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
  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 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).


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