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Adding section & Genetic interactions table to Gene pages.
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|{{Sub}}[[#Sequence Features|Sequence Features]]
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|{{Sub}}[[#Alleles and Phenotypes |Alleles and Phenotypes]]
|{{Sub}}[[#Alleles and Phenotypes |Alleles and Phenotypes]]
|{{Sub}}[[#Genetic Interactions | Genetic Interactions]]
|{{Sub}}[[#Genetic Resources  |Genetic Resources]]
|{{Sub}}[[#Genetic Resources  |Genetic Resources]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
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===Notes===
===Notes===


==Genetic Interactions==
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===Notes===


==Genetic Resources==
==Genetic Resources==

Revision as of 16:29, 24 June 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

frdB

Mnemonic

Fumarate reductase

Synonyms

ECK4149, b4153, JW4114[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

94.36 minutes, 94.36 minutes 

MG1655: 4378540..4377806
<gbrowseImage> name=NC_000913:4377806..4378540 source=ecoli preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4359228..4358494
<gbrowseImage> name=NC_012967:4358494..4359228 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4316541..4317275
<gbrowseImage> name=NC_012759:4316541..4317275 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 4385197..4384463
<gbrowseImage> name=AC_000091:4384463..4385197 source=ecoli_W3110 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

Coding Start (SO:0000323)

MG1655

4377809

Edman degradation

PMID:6751816[2]


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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

Strain DH10B

D51N

Nonsynonomous mutation

PMID:18245285[3]

ASAP

This is a SNP in E. coli K-12 Strain DH10B

ΔfrdB (Keio:JW4114)

deletion

deletion

PMID:16738554[4]

Shigen
CGSC10963[5]

frdBC58S

C58S

Affects center 1 (2Fe-2S)

seeded from UniProt:P0AC47

frdBC78S

C78S

Affects center 1 (2Fe-2S)

seeded from UniProt:P0AC47

frdBC63S

C63S

Affects center 1 (2Fe-2S)

seeded from UniProt:P0AC47

frdBC66S

C66S

Affects center 1 (2Fe-2S)

seeded from UniProt:P0AC47

ΔfrdB780::kan

PMID:16738554[4]

CGSC:100994


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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

JW4114

Plasmid clone

Shigen

PMID:16769691[6]

Status:Clone OK

Primer 1:GCCGCTGAGATGAAAAACCTGAA

Primer 2:CCGCGTGGTTTCAGGGTCGCGAT

cadB2231::Tn10

Linked marker

CAG18488 = CGSC7479[5]

est. P1 cotransduction: 46% [7]
Synonyms:zjd-2231::Tn10

cycA30::Tn10

Linked marker

CAG12073 = CGSC7482[5]

est. P1 cotransduction: 11% [7]

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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:EG10331

EchoBASE (EcoliWiki Page)

EchoBASE:EB0327

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b4153

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C5241

EcoGene (EcoliWiki Page)

EcoGene:EG10331

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:FRDB

CGSC (EcoliWiki Page)

CGSC:741

ASAP (EcoliWikiPage)

ASAP:ABE-0013602


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Notes

Links

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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. ↑ Cole, ST et al. (1982) Location and nucleotide sequence of frdB, the gene coding for the iron-sulphur protein subunit of the fumarate reductase of Escherichia coli. Eur. J. Biochem. 126 211-6 PubMed
  3. ↑ Durfee, T et al. (2008) The complete genome sequence of Escherichia coli DH10B: insights into the biology of a laboratory workhorse. J. Bacteriol. 190 2597-606 PubMed
  4. ↑ 4.0 4.1 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
  5. ↑ 5.0 5.1 5.2 CGSC: The Coli Genetics Stock Center
  6. ↑ 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
  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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