dmlR:Gene: Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older edit
touch
touch
 
Line 128: Line 128:
|
|
W3110: 1883523..1882600<br /><gbrowseImage>
W3110: 1883523..1882600<br /><gbrowseImage>
name=AC_000091:1882600..1883523
name=NC_007779:1882600..1883523
source=W3110
source=W3110
preset=GeneLocation
preset=GeneLocation
Line 134: Line 134:


|
|
{{GBrowseLink|W3110|AC_000091|1881600|1884523|GBrowse(W3110)}}  
{{GBrowseLink|W3110|NC_007779|1881600|1884523|GBrowse(W3110)}}  
|
|
{{GBrowseFastaLink|W3110|AC_000091|1882600|1883523|FASTA Dump}}  
{{GBrowseFastaLink|W3110|NC_007779|1882600|1883523|FASTA Dump}}  
|-  
|-  
|
|
Line 381: Line 381:
|-  
|-  
|
|
[http://www.ncbi.nlm.nih.gov/gene NCBI] ([[NCBI|EcoliWiki Page]])
[[RegulonDB]]
|
|
[http://www.ncbi.nlm.nih.gov/gene?term=946316 GeneID:946316]
RegulonDB:ECK120003572
|
|
Escherichia coli str. K-12 substr. MG1655  
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[[RegulonDB]]
[http://www.ncbi.nlm.nih.gov/gene NCBI] ([[NCBI|EcoliWiki Page]])
|
|
RegulonDB:ECK120003572
[http://www.ncbi.nlm.nih.gov/gene?term=946316 GeneID:946316]
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
Escherichia coli str. K-12 substr. MG1655  
|-  
|-  
|
|

Latest revision as of 20:39, 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

[back to top]


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

Standard name

dmlR

Mnemonic

Systematic nomenclature

Synonyms

ECK1797, b1799, JW1788[1], yeaT, JW1788

edit table


Notes

Location(s) and DNA Sequence

[back to top]


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

40.5 minutes 

MG1655: 1879833..1878910
<gbrowseImage> name=NC_000913:1878910..1879833 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1860387..1859464
<gbrowseImage> name=NC_012967:1859464..1860387 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1770969..1771892
<gbrowseImage> name=NC_012759:1770969..1771892 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1883523..1882600
<gbrowseImage> name=NC_007779:1882600..1883523 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1970404..1969481
<gbrowseImage> name=NC_010473:1969481..1970404 source=DH10B preset=GeneLocation </gbrowseImage>

edit table


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
edit table


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

ΔyeaT (Keio:JW1788)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC9499[3]

ΔyeaT::kan

deletion

Biolog:respiration

unable to respire Acetate

PMID:16095938[4]

ΔyeaT::kan

deletion

Biolog:respiration

unable to respire Bromosuccinate

PMID:16095938[4]

ΔyeaT724::kan

PMID:16738554[2]

CGSC:104396


edit table


Notes

Genetic Interactions

[back to top]



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


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

JW1788

Plasmid clone

Shigen

PMID:16769691[5]

Status:Clone OK

Primer 1:GCCAATAATTTACCGCTGCTGAA

Primer 2:CCGGCATGCTCCAGTGAAAAATT

zea-225::Tn10

Linked marker

CAG18465 = CGSC7388[3]

est. P1 cotransduction: 73% [6]
Synonyms:zdj-225::Tn10

eda-51::Tn10

Linked marker

CAG18486 = CGSC7392[3]

est. P1 cotransduction: 9% [6]

edit table


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:G6985

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13506

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003572

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946316

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3279

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0005987

Escherichia coli str. K-12 substr. MG1655

edit table


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. ↑ 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 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. ↑ 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).

Categories

Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=dmlR:Gene&oldid=1478258"