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!|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=EG12121 ECOCYC:EG12121]
EcoCyc:EG12121
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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]])
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[http://ecogene.org/geneinfo.php?eg_id=EG12121 EcoGene:EG12121]
EcoGene:EG12121
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Escherichia coli str. K-12 substr. MG1655  
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Escherichia coli str. K-12 substr. MG1655  
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[[RegulonDB]]
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RegulonDB:ECK120002024
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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EchoBASE:EB2042
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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-0004147
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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Revision as of 07:13, 27 May 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

rssB

Mnemonic

Regulation of Sigma S

Synonyms

ECK1230, b1235, JW1223, hnr, mviA, sprE, ychI, ychL[1], verA, ychL

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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

27.79 minutes 

MG1655: 1289465..1290478
<gbrowseImage> name=NC_000913:1289465..1290478 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1290036..1291049
<gbrowseImage> name=NC_012967:1290036..1291049 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1179050..1179976
<gbrowseImage> name=NC_012759:1179050..1179976 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1291819..1292832
<gbrowseImage> name=AC_000091:1291819..1292832 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1329706..1330719
<gbrowseImage> name=NC_010473:1329706..1330719 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

ΔrssB (Keio:JW1223)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC9109[3]

ΔsprE::kan

deletion

Biolog:respiration

unable to respire D-Galactoniate

PMID:16095938[4]

ΔsprE::kan

deletion

Biolog:respiration

unable to respire Acetate

PMID:16095938[4]

ΔsprE::kan

deletion

Biolog:respiration

unable to respire a-Hydroxybutyrate

PMID:16095938[4]

ΔsprE::kan

deletion

Biolog:respiration

unable to respire a-Ketobutyrate

PMID:16095938[4]

ΔsprE::kan

deletion

Biolog:respiration

unable to respire a-Ketoglutarate

PMID:16095938[4]

ΔsprE::kan

deletion

Biolog:respiration

unable to respire Succinate

PMID:16095938[4]

ΔsprE::kan

deletion

Biolog:respiration

unable to respire Bromosuccinate

PMID:16095938[4]

ΔsprE::kan

deletion

Biolog:respiration

unable to respire L-Alanine

PMID:16095938[4]

ΔsprE::kan

deletion

Biolog:respiration

unable to respire L-Asparagine

PMID:16095938[4]

ΔrssB1273

CGSC:77156

ΔrssB744::kan

PMID:16738554[2]

CGSC:102826

overproduction

Growth Phenotype

toxic

Suppressed by pcnA and hfq mutants PMID:19767441[5]

CAG45114 rssB::Tet

insertion

SigmaE activity

Increase in sigmaE activity

PMID:23224554[6]

Paternal Strain: CAG45114 Experimental Strain: SMR15271

See table S11 for full experimental data.

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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

JW1223

Plasmid clone

Shigen

PMID:16769691[7]

Status:Clone OK

Primer 1:GCCACGCAGCCATTGGTCGGAAA

Primer 2:CCTTCTGCAGACAACATCAAGCG

12H9

Kohara Phage

Genobase

PMID:3038334[8]

4D8

Kohara Phage

Genobase

PMID:3038334[8]

3D5

Kohara Phage

Genobase

PMID:3038334[8]

fadR13::Tn10

Linked marker

CAG18497 = CGSC7365[3]

est. P1 cotransduction: 7% [9]

oppC506::Tn10

Linked marker

CAG12169 = CGSC7369[3]

est. P1 cotransduction: 61% [9]
Synonyms:zch-506::Tn10, zci-506::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:EG12121

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12121

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945855

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002024

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2042

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004147

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. ↑ 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. ↑ 4.0 4.1 4.2 4.3 4.4 4.5 4.6 4.7 4.8 Ito, M et al. (2005) Functional analysis of 1440 Escherichia coli genes using the combination of knock-out library and phenotype microarrays. Metab. Eng. 7 318-27 PubMed
  5. ↑ Carabetta, VJ et al. (2009) The response regulator SprE (RssB) modulates polyadenylation and mRNA stability in Escherichia coli. J. Bacteriol. 191 6812-21 PubMed
  6. ↑ 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. ↑ 8.0 8.1 8.2 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).

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