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W3110: 3610154..3609453<br /><gbrowseImage>
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{{GBrowseLink|W3110|AC_000091|3608453|3611154|GBrowse(W3110)}}  
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{{GBrowseFastaLink|W3110|AC_000091|3609453|3610154|FASTA Dump}}  
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!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
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Mutation Rate was comparatively weak, to other strains, with decrease only happening in 33-67% of wild type population.  
Mutation Rate was comparatively weak, to other strains, with decrease only happening in 33-67% of wild type population.  
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SMR4562 yiaG-yfp FRTcatFRT ''fre784(del)''::FRTKanFRT
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Deletion & Insertion
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Sigma <sup>S</sup> activity
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Decrease in Sigma <sup>S</sup> activity
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PMID:23224554
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Parental Strain: SMR10582
Experimental Strain: SMR14267
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See table S8 for full experimental results. 
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CAG45114 ''fre784(del)''::FRTKanFRT
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deletion
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Sigma<sup>E</sup> activity
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Decrease in sigma<sup>E</sup> activity
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PMID:23224554
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Parental Strain: CAG45114
Experimental Strain: SMR15362
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See table S11 for experimental results. 


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!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
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EcoCyc:EG10334
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
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[[EcoGene]]
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10334 ECOCYC:EG10334]
EcoGene:EG10334
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Escherichia coli str. K-12 substr. MG1655  
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[RegulonDB]]
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[http://ecogene.org/geneinfo.php?eg_id=EG10334 EcoGene:EG10334]
RegulonDB:ECK120000328
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Escherichia coli str. K-12 substr. MG1655  
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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Escherichia coli str. K-12 substr. MG1655  
Escherichia coli str. K-12 substr. MG1655  
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[[EchoBASE]]
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EchoBASE:EB0330
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[[ASAP]]
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ASAP:ABE-0012559
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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Latest revision as of 20:50, 19 September 2013

{{#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

fre

Mnemonic

Flavin reductase

Synonyms

ECK3836, b3844, JW3820, fsrC, flrd, luxG, G2019, lux[1][2], fadI, flrD

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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

86.74 minutes 

MG1655: 4024550..4025251
<gbrowseImage> name=NC_000913:4024550..4025251 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4004998..4005699
<gbrowseImage> name=NC_012967:4004998..4005699 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3914219..3914920
<gbrowseImage> name=NC_012759:3914219..3914920 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3610154..3609453
<gbrowseImage> name=NC_007779:3609453..3610154 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4123470..4124171
<gbrowseImage> name=NC_010473:4123470..4124171 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

Coding Start (SO:0000323)

MG1655

4024553

Edman degradation

PMID:2050627[3]


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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

fre(del) (Keio:JW3820)

deletion

deletion

PMID:16738554[4]

Shigen

CGSC10763[5]

fre-352

CGSC:5420

fre-784(del)::kan

PMID:16738554[4]

CGSC:101000

fre784(del)::FRTKanFRT

Mutagenesis rate

Decreased stress-induced mutagenesis (SIM) phenotype.

PMID:23224554[6]

Parental Strain: SMR4562

Experimental Strain: SMR12007

Mutation Rate was comparatively weak, to other strains, with decrease only happening in 33-67% of wild type population.

SMR4562 yiaG-yfp FRTcatFRT fre784(del)::FRTKanFRT

Deletion & Insertion

Sigma S activity

Decrease in Sigma S activity


PMID:23224554[6]

Parental Strain: SMR10582 Experimental Strain: SMR14267

See table S8 for full experimental results.

CAG45114 fre784(del)::FRTKanFRT

deletion

SigmaE activity

Decrease in sigmaE activity

PMID:23224554[6]

Parental Strain: CAG45114 Experimental Strain: SMR15362

See table S11 for experimental results.

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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

JW3820

Plasmid clone

Shigen

PMID:16769691[7]

Status:Clone OK

Primer 1:GCCACAACCTTAAGCTGTAAAGT

Primer 2:CCGATAAATGCAAACGCATCGCC

16G1

Kohara Phage

Genobase

PMID:3038334[8]

metEo-3079::Tn10

Linked marker

CAG18491 = CGSC7464[5]

est. P1 cotransduction: 57% [9]
Synonyms:metE3079::Tn10 nnnThe Tn10 in CAG13491 is inserted in the metE regulatory region, but causes a Met- phenotype.

fad-751::Tn10

Linked marker

CAG18496 = CGSC7465[5]

est. P1 cotransduction: 92% [9]
Synonyms:fadAB101::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

EcoCyc:EG10334

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10334

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000328

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948325

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0330

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012559

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. ↑ EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ Spyrou, G et al. (1991) Characterization of the flavin reductase gene (fre) of Escherichia coli and construction of a plasmid for overproduction of the enzyme. J. Bacteriol. 173 3673-9 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. ↑ 6.0 6.1 6.2 Al Mamun, AA et al. (2012) Identity and function of a large gene network underlying mutagenic repair of DNA breaks. Science 338 1344-8 PubMed
  7. ↑ 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
  8. ↑ 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
  9. ↑ 9.0 9.1 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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