yaaW:Quickview: Difference between revisions
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!align=left {{table_heading_style}} |Gene Synonym(s) | !align=left {{table_heading_style}} |Gene Synonym(s) | ||
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''ECK0011, b0011, JW0010, htpY''<ref name='LIB:Riley_2006'/> | ''ECK0011, b0011, JW0010, htpY''<ref name='LIB:Riley_2006'/>, htgA, htpY'' | ||
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!align=left {{table_heading_style}} |Product Desc. | !align=left {{table_heading_style}} |Product Desc. | ||
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!align=left {{table_heading_style}} |Product Synonyms(s) | !align=left {{table_heading_style}} |Product Synonyms(s) | ||
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conserved protein<ref name='LIB:Riley_2006'/>, B0011<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, HtpY<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YaaW<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> | ''conserved protein<ref name='LIB:Riley_2006'/>, B0011<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, HtpY<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YaaW<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK0011, htgA, htpY, JW0010, b0011'' | ||
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!align=left {{table_heading_style}} |Function from GO | |||
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<GO_nr /> | |||
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!align=left {{table_heading_style}} |Knock-Out Phenotype | !align=left {{table_heading_style}} |Knock-Out Phenotype | ||
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transcription unit(s): [[:Category:Txn_unit:yaaW|yaaW]]<ref name='LIB:EcoCyc10.6'/> | |||
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!align=left {{table_heading_style}} |Regulation/Expression | !align=left {{table_heading_style}} |Regulation/Expression | ||
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!align=left {{table_heading_style}} |Regulation/Activity | !align=left {{table_heading_style}} |Regulation/Activity | ||
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!align=left {{table_heading_style}} |Quick Links | |||
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[[File:porteco.png|link=http://porteco.org/AjaxSearch.jsp?searchString=yaaW&s=search]] [[File:EcoCyc.gif|link=http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=G6082]] [[File:regulondb.jpg|link=http://regulondb.ccg.unam.mx/gene?term=ECK120002702&organism=ECK12&format=jsp&type=gene ]] <br/><br/> [[File:dnadisplay.png|link=http://ecoliwiki.net/tools/display_dna.php?gene=yaaW&loc=MG1655%3A11356..10643,W3110%3A11356..10643,DH10B%3A11356..10643,BW2952%3A10643..11356]] [[File:proteindisplay.png|link=http://ecoliwiki.net/tools/display_protein.php?f=NC_000913&start=10643&end=11356&gene=yaaW&aa=mnvnylndsdldflqhcseeqlanfarllthnekgktrlssvlmrnelfksmeghpeqhrrnwqliagelqhfggdsianklrghgklyrailldvskrlklkadkemstfeieqqlleqflrntwkkmdeehkqeflhavdarvneleellpllmkdkllakgvshllssqltrilrthaamsvlghgllrgaglggpvgaalngvkavsgsayrvtipavlqiaclrrmvsatqv]] [[File:pubmed.jpg|link=http://www.ncbi.nlm.nih.gov/sites/entrez?db=pubmed&cmd=Search&Term=yaaW+AND+escherichia+coli]] [[File:textpresso.jpg|link=http://textpresso.tamu.edu/cgi-bin/textpresso/search?q=yaaW]] | |||
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Latest revision as of 21:44, 27 May 2013
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| Quickview | Gene | Gene Product(s) | Expression | Evolution | On One Page |
| References | Suggestions |
| Standard Name |
yaaW |
|---|---|
| Gene Synonym(s) |
ECK0011, b0011, JW0010, htpY[1], htgA, htpY |
| Product Desc. |
Function unknown[4] |
| Product Synonyms(s) |
conserved protein[1], B0011[2][1], HtpY[2][1], YaaW[2][1] , ECK0011, htgA, htpY, JW0010, b0011 |
| Function from GO |
<GO_nr /> |
| Knock-Out Phenotype | |
| Regulation/Expression | |
| Regulation/Activity | |
| Quick Links |
|
| edit table |
See Help:Quickview for help with entering information in the Quickview table.
Notes
htgA was described as an an ORF on the opposite strand of yaaW, but the relationships among yaaW, htgA and htpY need to be reexamined. yaaW has homologs and looks like a protein-coding gene, whereas the ORF on the opposite strand once labeled htgA does not look like a protein coding gene. It is possible that there is a heat-inducible anti-sense regulatory RNA on the opposite strand of yaaW, but it is unlikely that this putative transcript would encode a functional protein product. A reexaminination shows no heat shock induction or Sigma 32 expression of htgA, consistent with it not being a gene or protein at all (Nonaka, 2006). Mutations in the opposite ORF would also disrupt yaaW and hence the htgA and htpY gene names are used as synonyms for yaaW. The experimental evidence supporting the existence of htgA is likely to be in error and the conclusions of Delaye (2008) regarding evolution of overlapping genes is unlikely to be true; their homology analysis and their analysis of substitutions within htgA are all consistent with htgA being an incorrect annotation; extreme skepticism is warranted when studying supposedly overlapping genes that do not appear to be phage-related in the E. coli chromsome; htgA does not represent the first such case nor does the study of Delaye (2008) appear to be novel; their demonstration that yaaW is likely to be a gene was unnecessary as numerous homologs are readily apparent and profiles (such as COG0443) have defined this gene family for many years.[4]
References
- ↑ 1.0 1.1 1.2 1.3 1.4 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
- ↑ 2.0 2.1 2.2 2.3 2.4 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
- ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
- ↑ 4.0 4.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.