rlmD:Gene: Difference between revisions

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!align=left {{table_heading_style}} |Standard name
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''rumB''
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''ECK0850, b0859, JW0843, ybjF''<ref name='LIB:Riley_2006'/>
''rumB, ECK0850, b0859, JW0843, ybjF''<ref name='LIB:Riley_2006'/>


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Revision as of 20:52, 24 January 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 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

rlmD

Mnemonic

RNA uridine methlytransferase

Synonyms

rumB, ECK0850, b0859, JW0843, ybjF[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

19.35 minutes 

MG1655: 897741..898868
<gbrowseImage> name=NC_000913:897741..898868 source=ecoli preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 915225..916352
<gbrowseImage> name=NC_012967:915225..916352 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 800709..801836
<gbrowseImage> name=NC_012759:800709..801836 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 898940..900067
<gbrowseImage> name=AC_000091:898940..900067 source=ecoli_W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 951669..952796
<gbrowseImage> name=NC_010473:951669..952796 source=ecoli_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

ΔrumB (Keio:JW0843)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC8879[3]

ΔrumB760::kan

PMID:16738554[2]

CGSC:102850


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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

JW0843

Plasmid clone

Shigen

PMID:16769691[4]

Status:Clone OK

Primer 1:GCCCAGTGCGCACTTTACGACGC

Primer 2:CCTTGCTTCACCAGCAGCGTCAG

zbh-29::Tn10

Linked marker

CAG18493 = CGSC7353[3]

est. P1 cotransduction: 1% [5]
Synonyms:zbi-29::Tn10

zca-1230::Tn10

Linked marker

CAG18478 = CGSC7356[3]

est. P1 cotransduction: 11% [5]
Synonyms:zbj-1230::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:G6449

EchoBASE (EcoliWiki Page)

EchoBASE:EB3201

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0859

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C0992

EcoGene (EcoliWiki Page)

EcoGene:EG13427

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:YBJF

ASAP (EcoliWikiPage)

ASAP:ABE-0002924


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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. ↑ 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
  5. ↑ 5.0 5.1 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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