rapA:Gene: Difference between revisions
Adding section & Genetic interactions table to Gene pages. |
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Revision as of 22:02, 24 June 2011
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| Quickview | Gene | Gene Product(s) | Expression | Evolution | On One Page |
| Nomenclature | Location(s) and DNA Sequence | Sequence Features | Alleles and Phenotypes | Genetic Interactions | Genetic Resources | Accessions | Links | References | Suggestions |
Nomenclature
See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.
| Standard name |
rapA |
|---|---|
| Mnemonic | |
| Synonyms |
ECK0060, b0059, JW0058, rapA, yabA, hepA[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 |
1.3 minutes |
MG1655: 63264..60358 |
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|
NC_012967: 66068..63162 |
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NC_012759: 60358..63264 |
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|
W3110 |
|
W3110: 63264..60358 |
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|
DH10B: 62378..60358 |
||||
| 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 |
|---|---|---|---|---|---|
|
Coding Start (SO:0000323) |
60361 |
Edman degradation |
| ||
| 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 |
|---|---|---|---|---|---|---|---|
|
ΔhepA (Keio:JW0058) |
deletion |
deletion |
|||||
|
rapAK183A |
K183A |
Loss of function. Still interacts with RNAP |
seeded from UniProt:P60240 | ||||
|
rapADE280AA |
DE280AA |
Loss of function. Still interacts with RNAP |
seeded from UniProt:P60240 | ||||
|
ΔhepA769::kan |
| ||||||
| edit table |
Notes
HepA has a plausible function and reasonable map location to be the gene affected by the psu-1 mutation.
Genetic Interactions
| Interactor | Interaction | Allele | Score(s) | Reference(s) | Accessions | Notes |
|---|---|---|---|---|---|---|
| edit table |
Notes
Genetic Resources
See Help:Gene_resources for help entering information into the Genetic Resources table.
| Resource | Resource Type | Source | Notes/Reference |
|---|---|---|---|
|
JW0058 |
Plasmid clone |
Status:Clone OK Primer 1:GCCCCTTTTACACTTGGTCAACG Primer 2:CCCTGATGCGTTACAACGATCAA | |
|
Linked marker |
est. P1 cotransduction: 34% [7] | ||
|
leuO3051::Tn10 |
Linked marker |
est. P1 cotransduction: 42% [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)
- ↑ Muzzin, O et al. (1998) Disruption of Escherichia coli hepA, an RNA polymerase-associated protein, causes UV sensitivity. J. Biol. Chem. 273 15157-61 PubMed
- ↑ Sukhodolets, MV et al. (2001) RapA, a bacterial homolog of SWI2/SNF2, stimulates RNA polymerase recycling in transcription. Genes Dev. 15 3330-41 PubMed
- ↑ 4.0 4.1 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
- ↑ 5.0 5.1 5.2 CGSC: The Coli Genetics Stock Center
- ↑ 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).