tdcA:Gene: Difference between revisions
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*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG10989 EcoCyc] | *[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG10989 EcoCyc] | ||
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Revision as of 22:06, 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 |
tdcA |
|---|---|
| Mnemonic |
Threonine dehydratase, catabolic |
| Synonyms |
ECK3107, b3118, JW3089[1] |
| 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 |
70.35 minutes |
MG1655: 3265087..3264149 |
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NC_012967: 3200099..3199161 |
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NC_012759: 3151297..3152235 |
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|
W3110 |
|
W3110: 3266920..3265982 |
||
|
DH10B: 3362832..3361894 |
||||
| 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 |
|---|---|---|---|---|---|---|---|
|
ΔtdcA (Keio:JW3089) |
deletion |
deletion |
|||||
|
ΔtdcA::kan |
deletion |
Biolog:respiration |
unable to respire D-Mannose |
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|
ΔtdcA::kan |
deletion |
Biolog:respiration |
unable to respire a-Ketoglutarate |
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|
ΔtdcA::kan |
deletion |
Biolog:respiration |
unable to respire Succinate |
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|
ΔtdcA::kan |
deletion |
Biolog:respiration |
unable to respire Bromosuccinate |
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|
ΔtdcA::kan |
deletion |
Biolog:respiration |
unable to respire L-Aspartate |
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|
ΔtdcA734::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 |
|---|---|---|---|
|
JW3089 |
Plasmid clone |
Status:Clone OK Primer 1:GCCAGCACTATTCTTCTTCCGAA Primer 2:CCACCAACTTCTATTAATTGCCT | |
|
Linked marker |
est. P1 cotransduction: 11% [6] | ||
|
Linked marker |
est. P1 cotransduction: 2% [6] | ||
| 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)
- ↑ 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
- ↑ 3.0 3.1 3.2 CGSC: The Coli Genetics Stock Center
- ↑ 4.0 4.1 4.2 4.3 4.4 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
- ↑ 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).