rfe:Gene
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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 |
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Nomenclature
See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.
| Standard name |
rfe |
|---|---|
| Mnemonic |
Rough |
| Synonyms |
ECK3776, b3784, JW3758, wecA[1], wecA |
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Notes
Location(s) and DNA Sequence
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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 |
85.48 minutes |
MG1655: 3965939..3967042 |
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NC_012967: 3929716..3930819 |
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NC_012759: 3855608..3856711 |
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W3110 |
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W3110: 3668765..3667662 |
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DH10B: 4064859..4065962 |
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Notes
Sequence Features
See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.
| Feature Type | Strain | Genomic Location | Evidence | Reference | Notes |
|---|---|---|---|---|---|
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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 |
|---|---|---|---|---|---|---|---|
|
Δrfe (Keio:JW3758) |
deletion |
deletion |
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|
wecAD276G |
D276G |
No loss of activity; both in vivo and in vitro |
seeded from UniProt:P0AC78 | ||||
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wecAHIHH279GGGG |
HIHH279GGGG |
Loss of activity. No binding to tunicamycin |
seeded from UniProt:P0AC78 | ||||
|
wecAD35G |
D35G |
Decrease in activity; both in vivo and in vitro |
seeded from UniProt:P0AC78 | ||||
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wecAD94G |
D94G |
No loss in activity; both in vivo and in vitro |
seeded from UniProt:P0AC78 | ||||
|
wecAD156E |
D156E |
Loss of activity; both in vivo and in vitro; when associated with E-159 |
seeded from UniProt:P0AC78 | ||||
|
wecAD156G |
D156G |
Loss of activity; both in vivo and in vitro. No binding to tunicamycin; when associated with G-159 |
seeded from UniProt:P0AC78 | ||||
|
wecAD159E |
D159E |
Loss of activity; both in vivo and in vitro; when associated with E-156 |
seeded from UniProt:P0AC78 | ||||
|
wecAH279S |
H279S |
Loss of activity. No binding to tunicamycin |
seeded from UniProt:P0AC78 | ||||
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wecADD90EE,GG |
DD90EE,GG |
Loss of activity in vivo. Decrease in activity in vitro. No change in binding to tunicamycin |
seeded from UniProt:P0AC78 | ||||
|
wecAR265K |
R265K |
Decrease in activity. Reduces binding to tunicamycin |
seeded from UniProt:P0AC78 | ||||
|
wecAD159G |
D159G |
Loss of activity; both in vivo and in vitro. No binding to tunicamycin; when associated with G-156 |
seeded from UniProt:P0AC78 | ||||
|
Δrfe-735::kan |
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Notes
Genetic Interactions
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| Interactor | Interaction | Allele | Score(s) | Reference(s) | Accessions | Notes |
|---|---|---|---|---|---|---|
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Notes
Genetic Resources
See Help:Gene_resources for help entering information into the Genetic Resources table.
| Resource | Resource Type | Source | Notes/Reference |
|---|---|---|---|
|
JW3758 |
Plasmid clone |
Status:Clone OK Primer 1:GCCAATTTACTGACAGTGAGTAC Primer 2:CCTTTGGTTAAATTGGGGCTGCC | |
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Kohara Phage |
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Kohara Phage |
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Linked marker |
est. P1 cotransduction: 64% [6] | ||
|
metEo-3079::Tn10 |
Linked marker |
est. P1 cotransduction: 16% [6] | |
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Notes
Accessions in Other Databases
See Help:Gene_accessions for help with entering information into the Gene Accessions table.
| Database | Accession | Notes |
|---|---|---|
|
Escherichia coli str. K-12 substr. MG1655 | ||
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Escherichia coli str. K-12 substr. MG1655 | ||
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Escherichia coli str. K-12 substr. MG1655 | ||
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Escherichia coli str. K-12 substr. MG1655 | ||
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Escherichia coli str. K-12 substr. MG1655 | ||
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Escherichia coli str. K-12 substr. MG1655 | ||
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Notes
Links
| Name | URL | Comments |
|---|---|---|
| edit table |
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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
- ↑ 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
- ↑ 5.0 5.1 Kohara, Y et al. (1987) The physical map of the whole E. coli chromosome: application of a new strategy for rapid analysis and sorting of a large genomic library. Cell 50 495-508 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).
