selU:Gene: Difference between revisions
Fixing Blattner deletion strains in alleles table. |
Fixing Blattner deletion strains in alleles table. |
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[http://asap.ahabs.wisc.edu/asap/feature_info.php?FeatureID=ABE-0001740 ybbB::Tn5KAN-I-SceI] ( | [http://asap.ahabs.wisc.edu/asap/feature_info.php?FeatureID=ABE-0001740 ybbB::Tn5KAN-I-SceI] (FB20189) | ||
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Insertion at nt 1013 in Minus orientation | Insertion at nt 1013 in Minus orientation | ||
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[http://asap.ahabs.wisc.edu/asap/feature_info.php?FeatureID=ABE-0001740 ybbB::Tn5KAN-I-SceI] ( | [http://asap.ahabs.wisc.edu/asap/feature_info.php?FeatureID=ABE-0001740 ybbB::Tn5KAN-I-SceI] (FB20189) | ||
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Insertion at nt 1013 in Minus orientation | Insertion at nt 1013 in Minus orientation | ||
Revision as of 22:23, 9 March 2011
{{#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 |
selU |
|---|---|
| Mnemonic |
Selenium |
| Synonyms |
ECK0496, b0503, JW0491, ybbB[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 |
11.41 minutes |
MG1655: 530450..529356 |
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NC_012759: 432115..433209 |
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|
W3110 |
|
W3110: 530450..529356 |
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|
DH10B: 469781..468687 |
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| 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 |
|---|---|---|---|---|---|---|---|
|
ΔybbB (Keio:JW0491) |
deletion |
deletion |
|||||
|
ybbB::Tn5KAN-I-SceI (FB20189) |
Insertion at nt 1013 in Minus orientation |
does not contain pKD46 | |||||
|
ybbB::Tn5KAN-I-SceI (FB20189) |
Insertion at nt 1013 in Minus orientation |
contains pKD46 | |||||
|
selUC96S |
C96S |
No change in activity |
seeded from UniProt:P33667 | ||||
|
selUC97S |
C97S |
In vivo, abolishes 2-selenouridine synthase activity. In vitro, reduces activity by only 50% |
seeded from UniProt:P33667 | ||||
|
ΔybbB::kan |
deletion |
Biolog:respiration |
unable to respire a-Ketoglutarate |
||||
|
ΔybbB786::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 |
|---|---|---|---|
|
JW0491 |
Plasmid clone |
Status:Clone OK Primer 1:GCCCAAGAGAGACACACGGAACA Primer 2:CCCCGCGCCTTAACCCATTCCGC | |
|
Linked marker |
est. P1 cotransduction: 34% [7] | ||
|
Linked marker |
est. P1 cotransduction: 43% [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)
- ↑ 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 Kang, Y et al. (2004) Systematic mutagenesis of the Escherichia coli genome. J. Bacteriol. 186 4921-30 PubMed
- ↑ 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).