selU:Gene: Difference between revisions

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!align=left |Standard name
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''selU''  
''selU''
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!align=left |Mnemonic
!align=left {{table_heading_style}} |Mnemonic
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Selenium
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!align=left |Synonyms
!align=left {{table_heading_style}} |Synonyms
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''ECK0496, b0503, JW0491'', ybbB<ref name='LIB:Riley_2006'/>
''ECK0496, b0503, JW0491'', ybbB<ref name='LIB:Riley_2006'/>
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!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
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''&#916;ybbB786::kan''
selUC97S
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C97S
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In vivo, abolishes 2-selenouridine synthase activity. In vitro, reduces activity by only 50%
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PMID:16738554
seeded from [http://www.uniprot.org/uniprot/P33667 UniProt:P33667]  
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[[cgscmutation:103658|CGSC:103658]]
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selUC97S
''&#916;ybbB786::kan''
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C97S
 
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In vivo, abolishes 2-selenouridine synthase activity. In vitro, reduces activity by only 50%
 
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PMID:16738554
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[[cgscmutation:103658|CGSC:103658]]
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seeded from [http://www.uniprot.org/uniprot/P33667 UniProt:P33667]


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[[Category:Genes in the ASKA clone collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:ybb genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:ybb genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:sel genes]]

Revision as of 21:44, 25 February 2010

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

Standard name

selU

Mnemonic

Selenium

Synonyms

ECK0496, b0503, JW0491, ybbB[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

11.41 minutes 

MG1655: 530450..529356
gbrowse_img.php?coord=529356..530450&genome=ecoli&name=MG1655&trackset=0&width=300&.png

W3110

 

W3110: 530450..529356
gbrowse_img.php?coord=529356..530450&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 469781..468687
gbrowse_img.php?coord=468687..469781&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

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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 Location Description
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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

ΔybbB (Keio:JW0491)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC8636[3]

ybbB::Tn5KAN

PMID:12519969[4]

ASAP

At position 1013 in Minus orientation, does not contain plasmid pKD46.
ASAP strain name: FB20190

ybbB::Tn5KAN

PMID:12519969[4]

ASAP

At position 1013 in Minus orientation, contains plasmid pKD46.
ASAP strain name: FB20191

selUC96S

C96S

No change in activity

seeded from UniProt:P33667

selUC97S

C97S

In vivo, abolishes 2-selenouridine synthase activity. In vitro, reduces activity by only 50%

seeded from UniProt:P33667

ΔybbB786::kan

PMID:16738554[2]

CGSC:103658


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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

JW0491

Plasmid clone

Shigen

PMID:16769691[5]

Status:Clone OK

Primer 1:GCCCAAGAGAGACACACGGAACA

Primer 2:CCCCGCGCCTTAACCCATTCCGC

gsk-3055::Tn10

Linked marker

CAG12154 = CGSC7341[3]

est. P1 cotransduction: 34% [6]
Synonyms:zbb-30-55::TnlO, zba-3055::Tn10

purK79::Tn10

Linked marker

CAG12171 = CGSC7342[3]

est. P1 cotransduction: 43% [6]
Synonyms:purE79::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 (EcoliWiki Page)

EcoCyc:EG11768

EchoBASE (EcoliWiki Page)

EchoBASE:EB1718

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0503

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C0618

EcoGene (EcoliWiki Page)

EcoGene:EG11768

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:YBBB

ASAP (EcoliWikiPage)

ASAP:ABE-0001740


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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 Glasner, JD et al. (2003) ASAP, a systematic annotation package for community analysis of genomes. Nucleic Acids Res. 31 147-51 PubMed
  5. ↑ 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
  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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