yaaI:Gene: Difference between revisions
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PMID:3038334 | |||
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[[:Category:Kohara_Phage:6H3|6H3]] | |||
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Kohara Phage | |||
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est. P1 cotransduction: 46% <ref name='LIB:Nichols_linked_Tn'/> <br /> | est. P1 cotransduction: 46% <ref name='LIB:Nichols_linked_Tn'/> <br /> | ||
Synonyms:car-96::Tn10 | Synonyms:car-96::Tn10 | ||
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Revision as of 21:49, 21 September 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 |
yaaI |
|---|---|
| Mnemonic |
Systematic nomenclature |
| Synonyms |
ECK0013, b0013, JW0012[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 |
0.25 minutes |
MG1655: 11786..11382 |
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NC_012967: 11784..11380 |
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NC_012759: 11382..11786 |
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W3110 |
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W3110: 11786..11382 |
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DH10B: 11786..11382 |
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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 |
|---|---|---|---|---|---|---|---|
|
yaaI::Tn5KAN-I-SceI (FB20004) |
Insertion at nt 299 in Plus orientation |
does not contain pKD46 | |||||
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ΔyaaI (Keio:JW0012) |
deletion |
deletion |
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yaaI::Tn5KAN-I-SceI (FB20003) |
Insertion at nt 299 in Plus orientation |
contains pKD46 | |||||
|
ΔyaaI::kan |
deletion |
Biolog:respiration |
unable to respire Acetate |
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|
ΔyaaI733::kan |
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| edit table |
Notes
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 |
|---|---|---|---|
|
JW0012 |
Plasmid clone |
Status:Clone OK Primer 1:GCCAAATCCGTTTTTACGATTTC Primer 2:CCGTCGTCGCCGATAATTTTCAG | |
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Kohara Phage |
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Kohara Phage |
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|
Linked marker |
est. P1 cotransduction: 68% [8] | ||
|
Linked marker |
est. P1 cotransduction: 46% [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)
- ↑ 2.0 2.1 Kang, Y et al. (2004) Systematic mutagenesis of the Escherichia coli genome. J. Bacteriol. 186 4921-30 PubMed
- ↑ 3.0 3.1 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
- ↑ 4.0 4.1 4.2 CGSC: The Coli Genetics Stock Center
- ↑ 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 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
- ↑ 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).