gapC:Gene: Difference between revisions
Fixing dimer GBrowse links. |
Fixing zoom on GBrowse image. |
||
| Line 74: | Line 74: | ||
32.07 minutes | 32.07 minutes | ||
| | | | ||
MG1655: 1487988..1487737<br />{{GBrowseFigureByCoord| | MG1655: 1487988..1487737<br />{{GBrowseFigureByCoord|1487737|1487988|ecoli|MG1655}} | ||
| | | | ||
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=G8205 EcoCyc] | *[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=G8205 EcoCyc] | ||
| Line 88: | Line 88: | ||
| | ||
| | | | ||
W3110: 1491678..1491427<br />{{GBrowseFigureByCoord| | W3110: 1491678..1491427<br />{{GBrowseFigureByCoord|1491427|1491678|ecoli_W3110|W3110}} | ||
| | | | ||
{{GBrowseLink|ecoli_W3110|AC_000091|1490427|1492678|GBrowse(W3110)}} | {{GBrowseLink|ecoli_W3110|AC_000091|1490427|1492678|GBrowse(W3110)}} | ||
| Line 99: | Line 99: | ||
32.07 minutes | 32.07 minutes | ||
| | | | ||
MG1655: 1488737..1487985<br />{{GBrowseFigureByCoord| | MG1655: 1488737..1487985<br />{{GBrowseFigureByCoord|1487985|1488737|ecoli|MG1655}} | ||
| | | | ||
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=G8205 EcoCyc] | *[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=G8205 EcoCyc] | ||
| Line 111: | Line 111: | ||
| | ||
| | | | ||
W3110: 1492427..1491675<br />{{GBrowseFigureByCoord| | W3110: 1492427..1491675<br />{{GBrowseFigureByCoord|1491675|1492427|ecoli_W3110|W3110}} | ||
| | | | ||
{{GBrowseLink|ecoli_W3110|AC_000091|1490675|1493427|GBrowse (W3110)}}<br \> | {{GBrowseLink|ecoli_W3110|AC_000091|1490675|1493427|GBrowse (W3110)}}<br \> | ||
| Line 122: | Line 122: | ||
| | ||
| | | | ||
MG1655: 1488737..1487737<br />{{GBrowseFigureByCoord| | MG1655: 1488737..1487737<br />{{GBrowseFigureByCoord|1487737|1488737|ecoli|MG1655}} | ||
| | | | ||
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=G8205 EcoCyc] | *[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=G8205 EcoCyc] | ||
| Line 134: | Line 134: | ||
| | ||
| | | | ||
W3110: 1492427..1491427<br />{{GBrowseFigureByCoord| | W3110: 1492427..1491427<br />{{GBrowseFigureByCoord|1491427|1492427|ecoli_W3110|W3110}} | ||
| | | | ||
{{GBrowseLink|ecoli_W3110|AC_000091|1490427|1493427|GBrowse (W3110)}}<br \> | {{GBrowseLink|ecoli_W3110|AC_000091|1490427|1493427|GBrowse (W3110)}}<br \> | ||
Revision as of 23:27, 12 December 2009
{{#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 | 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 |
gapC_1 |
|---|---|
| Mnemonic | |
| Synonyms |
gapC, ECK1409, b1416, JW1413, b1417, JW5906, b4493, JW5906+JW1413, gapC_2[1][2][3] |
| 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 |
32.07 minutes |
MG1655: 1487988..1487737 |
||
|
W3110 |
|
W3110: 1491678..1491427 |
||
|
MG1655 |
32.07 minutes |
MG1655: 1488737..1487985 |
||
|
W3110 |
|
W3110: 1492427..1491675 |
||
|
MG1655 |
|
MG1655: 1488737..1487737 |
||
|
W3110 |
|
W3110: 1492427..1491427 |
||
| edit table |
Notes
Sequence Features
See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.
| Feature type | Location | Description |
|---|---|---|
| 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 |
|---|---|---|---|---|---|---|---|
|
At position 128 in Plus orientation, contains plasmid pKD46. | |||||||
|
At position 128 in Plus orientation, does not contain plasmid pKD46. | |||||||
|
ΔgapC777::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 |
|---|---|---|---|
|
Plasmid clone |
Status: Primer 1: Primer 2: | ||
|
Linked marker |
est. P1 cotransduction: 7% [8] | ||
|
Linked marker |
est. P1 cotransduction: 82% [8] | ||
| 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)
- ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
- ↑ EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
- ↑ 4.0 4.1 Glasner, JD et al. (2003) ASAP, a systematic annotation package for community analysis of genomes. Nucleic Acids Res. 31 147-51 PubMed
- ↑ 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
- ↑ 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 CGSC: The Coli Genetics Stock Center
- ↑ 8.0 8.1 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).