dmlR:Gene: Difference between revisions
Table edited by Gwen via TableEdit |
Convert to gbrowse_img.php extension. |
||
| Line 76: | Line 76: | ||
40.5 minutes | 40.5 minutes | ||
| | | | ||
MG1655: 1879833..1878910<br /> | MG1655: 1879833..1878910<br /><gbrowseImage> | ||
name=NC_000913:1878910..1879833 | |||
source=ecoli | |||
preset=GeneLocation | |||
</gbrowseImage> | |||
| | | | ||
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=G6985 EcoCyc] | *[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=G6985 EcoCyc] | ||
| Line 90: | Line 95: | ||
| | | | ||
NC_012967: 1860387..1859464<br /> | NC_012967: 1860387..1859464<br /><gbrowseImage> | ||
name=NC_012967:1859464..1860387 | |||
source=REL606 | |||
preset=GeneLocation | |||
</gbrowseImage> | |||
| | | | ||
{{GBrowseLink|REL606|NC_012967|1859464|1860387|GBrowse (REL606)}} | {{GBrowseLink|REL606|NC_012967|1859464|1860387|GBrowse (REL606)}} | ||
| Line 101: | Line 111: | ||
| | | | ||
NC_012759: 1770969..1771892<br /> | NC_012759: 1770969..1771892<br /><gbrowseImage> | ||
name=NC_012759:1770969..1771892 | |||
source=BW2952 | |||
preset=GeneLocation | |||
</gbrowseImage> | |||
| | | | ||
{{GBrowseLink|BW2952|012759|1770969|NC_1771892|GBrowse (BW2952)}} | {{GBrowseLink|BW2952|012759|1770969|NC_1771892|GBrowse (BW2952)}} | ||
| Line 112: | Line 127: | ||
| | ||
| | | | ||
W3110: 1883523..1882600<br /> | W3110: 1883523..1882600<br /><gbrowseImage> | ||
name=AC_000091:1882600..1883523 | |||
source=ecoli_W3110 | |||
preset=GeneLocation | |||
</gbrowseImage> | |||
| | | | ||
{{GBrowseLink|ecoli_W3110|AC_000091|1881600|1884523|GBrowse(W3110)}} | {{GBrowseLink|ecoli_W3110|AC_000091|1881600|1884523|GBrowse(W3110)}} | ||
| Line 123: | Line 143: | ||
| | | | ||
DH10B: 1970404..1969481<br /> | DH10B: 1970404..1969481<br /><gbrowseImage> | ||
name=NC_010473:1969481..1970404 | |||
source=ecoli_DH10B | |||
preset=GeneLocation | |||
</gbrowseImage> | |||
| | | | ||
{{GBrowseLink|ecoli_DH10B|NC_010473|1967635|1972250|GBrowse(DH10B)}} | {{GBrowseLink|ecoli_DH10B|NC_010473|1967635|1972250|GBrowse(DH10B)}} | ||
Revision as of 22:35, 26 July 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 | Sequence Features | Alleles and Phenotypes | Genetic Resources | Accessions | Links | References | Suggestions |
Nomenclature
See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.
| Standard name |
yeaT |
|---|---|
| Mnemonic |
Systematic nomenclature |
| Synonyms | |
| edit table |
Notes
Location(s) and DNA Sequence
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 |
||
|
NC_012967: 1860387..1859464 |
||||
|
NC_012759: 1770969..1771892 |
||||
|
W3110 |
|
W3110: 1883523..1882600 |
||
|
DH10B: 1970404..1969481 |
||||
| edit table |
Notes
Sequence Features
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
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 |
|||||
|
ΔyeaT::kan |
deletion |
Biolog:respiration |
unable to respire Acetate |
||||
|
ΔyeaT::kan |
deletion |
Biolog:respiration |
unable to respire Bromosuccinate |
||||
|
ΔyeaT724::kan |
| ||||||
| edit table |
Notes
Genetic Resources
See Help:Gene_resources for help entering information into the Genetic Resources table.
| Resource | Resource Type | Source | Notes/Reference |
|---|---|---|---|
|
JW1788 |
Plasmid clone |
Status:Clone OK Primer 1:GCCAATAATTTACCGCTGCTGAA Primer 2:CCGGCATGCTCCAGTGAAAAATT | |
|
Linked marker |
est. P1 cotransduction: 73% [7] | ||
|
Linked marker |
est. P1 cotransduction: 9% [7] | ||
| edit table |
Notes
Accessions in Other Databases
See Help:Gene_accessions for help with entering information into the Gene Accessions table.
| Database | Accession | Notes |
|---|---|---|
|
| ||
| edit table |
Notes
Links
| Name | URL | Comments |
|---|---|---|
| edit table |
<protect>
References
See Help:References for how to manage references in EcoliWiki.
- ↑ Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
- ↑ Lukas, H et al. (2010) Regulation of aerobic and anaerobic D-malate metabolism of Escherichia coli by the LysR-type regulator DmlR (YeaT). J. Bacteriol. 192 2503-11 PubMed
- ↑ 3.0 3.1 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
- ↑ 4.0 4.1 4.2 CGSC: The Coli Genetics Stock Center
- ↑ 5.0 5.1 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
- ↑ 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
- ↑ 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).