glnD:Gene: Difference between revisions
/Volumes/r3/t3/ul/working/touchTables/touch_all_tables.php |
Convert to gbrowse_img.php extension. |
||
| Line 75: | Line 75: | ||
4.01 minutes | 4.01 minutes | ||
| | | | ||
MG1655: 188650..185978<br /> | MG1655: 188650..185978<br /><gbrowseImage> | ||
name=NC_000913:185978..188650 | |||
source=ecoli | |||
preset=GeneLocation | |||
</gbrowseImage> | |||
| | | | ||
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG11411 EcoCyc] | *[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG11411 EcoCyc] | ||
| Line 89: | Line 94: | ||
| | | | ||
NC_012967: 191492..188820<br /> | NC_012967: 191492..188820<br /><gbrowseImage> | ||
name=NC_012967:188820..191492 | |||
source=REL606 | |||
preset=GeneLocation | |||
</gbrowseImage> | |||
| | | | ||
{{GBrowseLink|REL606|NC_012967|188820|191492|GBrowse (REL606)}} | {{GBrowseLink|REL606|NC_012967|188820|191492|GBrowse (REL606)}} | ||
| Line 100: | Line 110: | ||
| | | | ||
NC_012759: 185977..188649<br /> | NC_012759: 185977..188649<br /><gbrowseImage> | ||
name=NC_012759:185977..188649 | |||
source=BW2952 | |||
preset=GeneLocation | |||
</gbrowseImage> | |||
| | | | ||
{{GBrowseLink|BW2952|012759|185977|NC_188649|GBrowse (BW2952)}} | {{GBrowseLink|BW2952|012759|185977|NC_188649|GBrowse (BW2952)}} | ||
| Line 111: | Line 126: | ||
| | ||
| | | | ||
W3110: 188650..185978<br /> | W3110: 188650..185978<br /><gbrowseImage> | ||
name=AC_000091:185978..188650 | |||
source=ecoli_W3110 | |||
preset=GeneLocation | |||
</gbrowseImage> | |||
| | | | ||
{{GBrowseLink|ecoli_W3110|AC_000091|184978|189650|GBrowse(W3110)}} | {{GBrowseLink|ecoli_W3110|AC_000091|184978|189650|GBrowse(W3110)}} | ||
| Line 122: | Line 142: | ||
| | | | ||
DH10B: 162754..160082<br /> | DH10B: 162754..160082<br /><gbrowseImage> | ||
name=NC_010473:160082..162754 | |||
source=ecoli_DH10B | |||
preset=GeneLocation | |||
</gbrowseImage> | |||
| | | | ||
{{GBrowseLink|ecoli_DH10B|NC_010473|154738|168098|GBrowse(DH10B)}} | {{GBrowseLink|ecoli_DH10B|NC_010473|154738|168098|GBrowse(DH10B)}} | ||
Revision as of 20:51, 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 |
glnD |
|---|---|
| Mnemonic |
Glutamine |
| Synonyms |
ECK0165, b0167, JW0162, glnD5[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 |
4.01 minutes |
MG1655: 188650..185978 |
||
|
NC_012967: 191492..188820 |
||||
|
NC_012759: 185977..188649 |
||||
|
W3110 |
|
W3110: 188650..185978 |
||
|
DH10B: 162754..160082 |
||||
| 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 |
|---|---|---|---|---|---|---|---|
|
ΔglnD (Keio:JW0162) |
deletion |
deletion |
|||||
|
At position 2325 in Plus orientation, does not contain plasmid pKD46. | |||||||
|
GlnD G93 |
G93L or G93V |
loss of UTase activity |
|||||
|
GlnD G94 |
G94D |
loss of UTase activity |
|||||
|
GlnD D107 |
D107A or D107V or D107Y |
loss of UTase activity |
| ||||
| edit table |
Notes
Genetic Resources
See Help:Gene_resources for help entering information into the Genetic Resources table.
| Resource | Resource Type | Source | Notes/Reference |
|---|---|---|---|
|
JW0162 |
Plasmid clone |
Status:Clone OK Primer 1:GCCAATACCCTTCCAGAACAGTA Primer 2:CCCCCTTTATCGTTTGGATTGAG | |
|
Linked marker |
est. P1 cotransduction: 21% [7] | ||
|
Linked marker |
est. P1 cotransduction: 13% [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)
- ↑ 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
- ↑ Glasner, JD et al. (2003) ASAP, a systematic annotation package for community analysis of genomes. Nucleic Acids Res. 31 147-51 PubMed
- ↑ 4.0 4.1 4.2 Zhang, Y et al. (2010) Mutagenesis and functional characterization of the four domains of GlnD, a bifunctional nitrogen sensor protein. J. Bacteriol. 192 2711-21 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 CGSC: The Coli Genetics Stock Center
- ↑ 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).