ycjY:Gene

From EcoliWiki
Jump to: navigation, search

{{#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

<protect>

Nomenclature

[back to top]


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

Standard name

ycjY

Mnemonic

Systematic nomenclature

Synonyms

ECK1324, b1327, JW5804[1], JW5804

</protect>

Notes

Location(s) and DNA Sequence

[back to top]


<protect> 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

29.94 minutes 

MG1655: 1389889..1388957
<gbrowseImage> name=NC_000913:1388957..1389889 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1390234..1389302
<gbrowseImage> name=NC_012967:1389302..1390234 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1279806..1280738
<gbrowseImage> name=NC_012759:1279806..1280738 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1393579..1392647
<gbrowseImage> name=NC_007779:1392647..1393579 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1479285..1478353
<gbrowseImage> name=NC_010473:1478353..1479285 source=DH10B preset=GeneLocation </gbrowseImage>

</protect>

Notes

Sequence Features

[back to top]


See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes

<protect></protect>

Notes

Alleles and Phenotypes

[back to top]


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

ΔycjY (Keio:JW5804)

deletion

deletion

PMID:16738554[2]

Shigen

ΔycjY::kan

deletion

Biolog:respiration

unable to respire Acetate

PMID:16095938[3]


<protect></protect>

Notes

Genetic Interactions

[back to top]


<protect>

Interactor Interaction Allele Score(s) Reference(s) Accessions Notes

</protect>

Notes

Genetic Resources

[back to top]


See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource Resource Type Source Notes/Reference

JW5804

Plasmid clone

Shigen

PMID:16769691[4]

Status:cloned as old JW

Primer 1:GCCAGGAACGGAATGATGAATAA

Primer 2:CCaAGAGTTTCCTCAAAGAACGG

3H8

Kohara Phage

Genobase

PMID:3038334[5]

6B4

Kohara Phage

Genobase

PMID:3038334[5]

3G3

Kohara Phage

Genobase

PMID:3038334[5]

zcj-233::Tn10

Linked marker

CAG12028 = CGSC7373[6]

est. P1 cotransduction: 48% [7]
Synonyms:zci-233::Tn10

recT3061::Tn10

Linked marker

CAG12081 = CGSC7375[6]

est. P1 cotransduction: 45% [7]
Synonyms:zcj-3061::Tn10, zda-3061::Tn10

<protect></protect>

Notes

Accessions in Other Databases

[back to top]


See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc

EcoCyc:G6663

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13922

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003258

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945988

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3681

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004453

Escherichia coli str. K-12 substr. MG1655

<protect></protect>

Notes

Links

[back to top]



<protect>

References

[back to top]


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. 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. 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
  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 5.2 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
  6. 6.0 6.1 CGSC: The Coli Genetics Stock Center
  7. 7.0 7.1 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