rpsF:Gene: Difference between revisions

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W3110: 4429798..4430193<br /><gbrowseImage>
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{{GBrowseLink|W3110|AC_000091|4428798|4431193|GBrowse(W3110)}}  
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[http://www.ncbi.nlm.nih.gov/gene NCBI] ([[NCBI|EcoliWiki Page]])
[[RegulonDB]]
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[http://www.ncbi.nlm.nih.gov/gene?term=948723 GeneID:948723]
RegulonDB:ECK120000896
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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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[[RegulonDB]]
[http://www.ncbi.nlm.nih.gov/gene NCBI] ([[NCBI|EcoliWiki Page]])
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RegulonDB:ECK120000896
[http://www.ncbi.nlm.nih.gov/gene?term=948723 GeneID:948723]
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
Escherichia coli str. K-12 substr. MG1655  
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Latest revision as of 20:52, 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

rpsF

Mnemonic

Ribosomal protein, small

Synonyms

ECK4196, b4200, JW4158, sdgH[1], sdgH

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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

95.33 minutes, 95.33 minutes 

MG1655: 4423141..4423536
<gbrowseImage> name=NC_000913:4423141..4423536 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4403273..4403668
<gbrowseImage> name=NC_012967:4403273..4403668 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4361876..4362271
<gbrowseImage> name=NC_012759:4361876..4362271 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 4429798..4430193
<gbrowseImage> name=NC_007779:4429798..4430193 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4523503..4523898
<gbrowseImage> name=NC_010473:4523503..4523898 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

4423141

Edman degradation

PMID:328274[2]
PMID:8740179[3]
PMID:9298646[4]
PMID:9600841[5]
PMID:9740056[6]
PMID:9868784[7]

Coding Start (SO:0000323)

MG1655

4423153

Edman degradation

PMID:328274[2]
PMID:8740179[3]
PMID:9298646[4]
PMID:9600841[5]
PMID:9740056[6]
PMID:9868784[7]


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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

ΔrpsF (Keio:JW4158)

deletion

deletion

PMID:16738554[8]

Shigen
CGSC10995[9]

ΔrpsF750::kan

PMID:16738554[8]

CGSC:102798

rpsF

deletion

Sensitivity to

increases sensitivity to bicyclomycin

PMID:21357484[10]

fig 2

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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

JW4158

Plasmid clone

Shigen

PMID:16769691[11]

Status:Clone OK

Primer 1:GCCCGTCATTACGAAATCGTTTT

Primer 2:CCtTCTTCAGAATCCCCAGCTTC

1G10

Kohara Phage

Genobase

PMID:3038334[12]

7E9

Kohara Phage

Genobase

PMID:3038334[12]

cadB2231::Tn10

Linked marker

CAG18488 = CGSC7479[9]

est. P1 cotransduction: 2% [13]
Synonyms:zjd-2231::Tn10

cycA30::Tn10

Linked marker

CAG12073 = CGSC7482[9]

est. P1 cotransduction: 90% [13]

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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:EG10905

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10905

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000896

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948723

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0898

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013740

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 Hitz, H et al. (1977) Determination of the complete amino-acid sequence of protein S6 from the wild-type and a mutant of Escherichia coli. Eur. J. Biochem. 75 497-512 PubMed
  3. ↑ 3.0 3.1 Pasquali, C et al. (1996) Two-dimensional gel electrophoresis of Escherichia coli homogenates: the Escherichia coli SWISS-2DPAGE database. Electrophoresis 17 547-55 PubMed
  4. ↑ 4.0 4.1 Link, AJ et al. (1997) Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12. Electrophoresis 18 1259-313 PubMed
  5. ↑ 5.0 5.1 Wilkins, MR et al. (1998) Protein identification with N and C-terminal sequence tags in proteome projects. J. Mol. Biol. 278 599-608 PubMed
  6. ↑ 6.0 6.1 Tonella, L et al. (1998) '98 Escherichia coli SWISS-2DPAGE database update. Electrophoresis 19 1960-71 PubMed
  7. ↑ 7.0 7.1 Wasinger, VC & Humphery-Smith, I (1998) Small genes/gene-products in Escherichia coli K-12. FEMS Microbiol. Lett. 169 375-82 PubMed
  8. ↑ 8.0 8.1 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
  9. ↑ 9.0 9.1 9.2 CGSC: The Coli Genetics Stock Center
  10. ↑ Tran, L et al. (2011) Single-gene deletion mutants of Escherichia coli with altered sensitivity to bicyclomycin, an inhibitor of transcription termination factor Rho. J. Bacteriol. 193 2229-35 PubMed
  11. ↑ 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
  12. ↑ 12.0 12.1 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
  13. ↑ 13.0 13.1 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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