cspA:Evolution: Difference between revisions

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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="D46ac04a59732e"  class=" tableEdit Evolution_homologs_table" 
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!Organism!!Homologs (Statistics)!!Comments
!|Organism!!Homologs (Statistics)!!Comments
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''Anopheles gambiae''   
''Anopheles gambiae''   
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''Apis mellifera''   
''Apis mellifera''   
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''Arabidopsis thaliana''   
''Arabidopsis thaliana''   
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''Bos taurus''   
''Bos taurus''   
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''Caenorhabditis briggsae''   
''Caenorhabditis briggsae''   
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''Caenorhabditis elegans''   
''Caenorhabditis elegans''   
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''Canis familiaris''   
''Canis familiaris''   
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''Ciona intestinalis''   
''Ciona intestinalis''   
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''Danio rerio''   
''Danio rerio''   
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''Drosophila melanogaster''   
''Drosophila melanogaster''   
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''Drosophila pseudoobscura''   
''Drosophila pseudoobscura''   
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''Gallus gallus''   
''Gallus gallus''   
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''Homo sapiens''   
''Homo sapiens''   
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''Macaca mulatta''   
''Macaca mulatta''   
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''Monodelphis domestica''   
''Monodelphis domestica''   
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''Mus musculus''   
''Mus musculus''   
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''Oryza gramene''   
''Oryza gramene''   
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''Pan troglodytes''   
''Pan troglodytes''   
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''Rattus norvegicus''   
''Rattus norvegicus''   
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''Takifugu rubripes''   
''Takifugu rubripes''   
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''Tetraodon nigroviridis''   
''Tetraodon nigroviridis''   
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''Xenopus tropicalis''   
''Xenopus tropicalis''   
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''Shigella flexneri''   
''Shigella flexneri''   
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''E. coli'' O157  
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{{Evolution_homologs_table_help}}
 


===Do-It-Yourself Web Tools===
===Do-It-Yourself Web Tools===
*[http://130.14.29.110/BLAST/ BLAST]
*[http://130.14.29.110/BLAST/ BLAST]
*[http://130.14.29.110/BLAST/Blast.cgi?CMD=Web&LAYOUT=TwoWindows&AUTO_FORMAT=Semiauto&ALIGNMENTS=250&ALIGNMENT_VIEW=Pairwise&CLIENT=web&COMPOSITION_BASED_STATISTICS=on&DATABASE=nr&CDD_SEARCH=on&DESCRIPTIONS=500&ENTREZ_QUERY=%28none%29&EXPECT=10&FORMAT_OBJECT=Alignment&FORMAT_TYPE=HTML&I_THRESH=0.005&MATRIX_NAME=BLOSUM62&NCBI_GI=on&PAGE=Proteins&PROGRAM=blastp&RUN_PSIBLAST=on&SERVICE=plain&SET_DEFAULTS.x=36&SET_DEFAULTS.y=5&SHOW_OVERVIEW=on&END_OF_HTTPGET=Yes&SHOW_LINKOUT=yes&GET_SEQUENCE=yes&SEARCH_NAME=psi_bp/ CDD]
*[http://130.14.29.110/BLAST/Blast.cgi?CMD=Web&LAYOUT=TwoWindows&AUTO_FORMAT=Semiauto&ALIGNMENTS=250&ALIGNMENT_VIEW=Pairwise&CLIENT=web&COMPOSITION_BASED_STATISTICS=on&DATABASE=nr&CDD_SEARCH=on&DESCRIPTIONS=500&ENTREZ_QUERY=%28none%29&EXPECT=10&FORMAT_OBJECT=Alignment&FORMAT_TYPE=HTML&I_THRESH=0.005&MATRIX_NAME=BLOSUM62&NCBI_GI=on&PAGE=Proteins&PROGRAM=blastp&RUN_PSIBLAST=on&SERVICE=plain&SET_DEFAULTS.x=36&SET_DEFAULTS.y=5&SHOW_OVERVIEW=on&END_OF_HTTPGET=Yes&SHOW_LINKOUT=yes&GET_SEQUENCE=yes&SEARCH_NAME=psi_bp/ CDD]
*[http://inparanoid.sbc.su.se/cgi-bin/eid_search.pl?id=NP_418012&idtype=all&start=on&species=All&conf=0.05 InParanoid]
*[http://inparanoid.sbc.su.se/cgi-bin/gene_search.cgi?id=NP_418012&idtype=all&all_or_selection=all&specieslist=1&scorelimit=0.05&.submit=Submit&.cgifields=specieslist&.cgifields=idtype&.cgifields=all_or_selection InParanoid]
*[http://www.sanger.ac.uk/PostGenomics/S_pombe/YOGY/ YOGY]
*[http://www.sanger.ac.uk/PostGenomics/S_pombe/YOGY/ YOGY]


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!Database!!Accession!!Notes
!|Database!!Accession!!Notes
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[http://pfam.janelia.org/ Pfam] ([[Pfam|EcoliWiki Page]])
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[http://pfam.janelia.org/family/PF00313 PF00313  'Cold-shock' DNA-binding domain]
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[http://www.sanger.ac.uk/Software/Pfam/ PFAM] ([[PFAM|EcoliWiki Page]])  
[http://supfam.cs.bris.ac.uk/SUPERFAMILY/ Superfamily] ([[Superfamily|EcoliWiki Page]])
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[http://www.sanger.ac.uk/cgi-bin/Pfam/getacc?PF00313 PFAM:PF00313]
[http://supfam.cs.bris.ac.uk/SUPERFAMILY/cgi-bin/genome.cgi?sf=50249 SUPERFAMILY:50249]
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[[EcoCyc]]
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EcoCyc:EG10166
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[[EcoGene]]
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EcoGene:EG10166
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[[RegulonDB]]
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RegulonDB:ECK120000162
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[[EchoBASE]]
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EchoBASE:EB0164
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[[ASAP]]
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ASAP:ABE-0011616
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
 
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<protect><!--Families_notes--></protect>
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===Notes===
===Notes===
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==References==
==References==
{{BacktoTop}}
{{BacktoTop}}
{{RefHelp}}
{{RefHelp}}
<references/>
<references />
<noinclude>
__NOTOC__
__NOTOC__
</noinclude>
===Categories===
===Categories===
{{BacktoTop}}
{{BacktoTop}}

Latest revision as of 08:36, 27 May 2013

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Homologs Families Links References Suggestions

Homologs in Other Organisms

[back to top]


See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

Organism Homologs (Statistics) Comments

Anopheles gambiae

  • ENSANGP00000011455 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000035713 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT4G36020 (score: 1.000; bootstrap: 100%)
  • AT4G38680 (score: 1.000; bootstrap: 100%)
  • AT2G21060 (score: 1.000; bootstrap: 100%)
  • AT2G17870 (score: 0.545)
  • AT5G46730 (score: 0.091)
  • AT2G30560 (score: 0.091)
  • AT4G01985 (score: 0.067)
  • AT2G05440 (score: 0.062)
  • AT2G21660 (score: 0.051)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000023094 (score: 1.000; bootstrap: 80%)
  • ENSBTAP00000012733 (score: 1.000; bootstrap: 80%)
  • ENSBTAP00000023101 (score: 0.327)
  • ENSBTAP00000032304 (score: 0.166)
  • ENSBTAP00000005429 (score: 0.145)
  • ENSBTAP00000016451 (score: 0.071)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00025935 (score: 1.000; bootstrap: 100%)
  • WBGene00032931 (score: 1.000; bootstrap: 100%)
  • WBGene00033626 (score: 1.000; bootstrap: 100%)
  • WBGene00035267 (score: 1.000; bootstrap: 100%)
  • WBGene00025320 (score: 1.000; bootstrap: 100%)
  • WBGene00037745 (score: 0.203)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00000474 (score: 1.000; bootstrap: 100%)
  • WBGene00000472 (score: 1.000; bootstrap: 100%)
  • WBGene00003014 (score: 1.000; bootstrap: 100%)
  • WBGene00000473 (score: 0.667)
  • WBGene00000475 (score: 0.165)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000014863 (score: 1.000; bootstrap: 78%)
  • ENSCAFP00000025464 (score: 1.000; bootstrap: 78%)
  • ENSCAFP00000019752 (score: 1.000; bootstrap: 79%)
  • ENSCAFP00000003704 (score: 1.000; bootstrap: 81%)
  • ENSCAFP00000001245 (score: 1.000; bootstrap: 78%)
  • ENSCAFP00000023761 (score: 0.321)
  • ENSCAFP00000024297 (score: 0.241)
  • ENSCAFP00000024295 (score: 0.237)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000012813 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-000629-3 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-040425-592 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-040516-5 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0035626 (score: 1.000; bootstrap: 63%)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA14466-PA (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000007728 (score: 1.000; bootstrap: 78%)
  • ENSGALP00000023766 (score: 0.148)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000350456 (score: 0.892)
  • ENSP00000228251 (score: 1.000; bootstrap: 77%)
  • ENSP00000163282 (score: 1.000; bootstrap: 78%)
  • ENSP00000347863 (score: 0.769)
  • ENSP00000331292 (score: 0.426)
  • ENSP00000007699 (score: 0.272)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000022751 (score: 0.705)
  • ENSMMUP00000029562 (score: 1.000; bootstrap: 78%)
  • ENSMMUP00000017257 (score: 1.000; bootstrap: 79%)
  • ENSMMUP00000029908 (score: 0.233)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000022758 (score: 0.366)
  • ENSMODP00000021480 (score: 1.000; bootstrap: 77%)
  • ENSMODP00000021948 (score: 0.294)

From Inparanoid:20070104

Mus musculus

  • MGI:2137670 (score: 1.000; bootstrap: 100%)
  • MGI:99146 (score: 1.000; bootstrap: 100%)
  • MGI:1096372 (score: 0.292)
  • MGI:1925802 (score: 0.289)

From Inparanoid:20070104

Oryza gramene

  • Q6YUR8 (score: 1.000; bootstrap: 94%)
  • Q75QN8 (score: 1.000; bootstrap: 84%)
  • Q8LPA7 (score: 0.904)
  • Q75QN9 (score: 0.694)
  • Q84UR8 (score: 0.521)
  • Q69UP6 (score: 0.121)
  • Q69T79 (score: 0.068)
  • Q6ZL79 (score: 0.057)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000044294 (score: 0.815)
  • ENSPTRP00000010950 (score: 1.000; bootstrap: 100%)
  • ENSPTRP00000008009 (score: 1.000; bootstrap: 100%)
  • ENSPTRP00000001059 (score: 1.000; bootstrap: 100%)
  • ENSPTRP00000014791 (score: 0.276)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000044956 (score: 0.853)
  • ENSRNOP00000048698 (score: 1.000; bootstrap: 78%)
  • ENSRNOP00000007427 (score: 1.000; bootstrap: 79%)
  • ENSRNOP00000045908 (score: 1.000; bootstrap: 81%)
  • ENSRNOP00000047897 (score: 0.664)
  • ENSRNOP00000023003 (score: 0.293)
  • ENSRNOP00000050512 (score: 0.283)
  • ENSRNOP00000047157 (score: 0.164)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000146056 (score: 1.000; bootstrap: 75%)
  • NEWSINFRUP00000158886 (score: 0.194)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00022541001 (score: 1.000; bootstrap: 100%)
  • GSTENP00023133001 (score: 1.000; bootstrap: 100%)
  • GSTENP00018633001 (score: 0.211)
  • GSTENP00019221001 (score: 0.185)
  • GSTENP00038594001 (score: 0.095)
  • GSTENP00009564001 (score: 0.063)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000029443 (score: 1.000; bootstrap: 79%)
  • ENSXETP00000035457 (score: 0.276)

From Inparanoid:20070104

Shigella flexneri

CSPA

From SHIGELLACYC

E. coli O157

CSPA

From ECOO157CYC

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Do-It-Yourself Web Tools


Notes

Families

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

Pfam (EcoliWiki Page)

PF00313 'Cold-shock' DNA-binding domain

Superfamily (EcoliWiki Page)

SUPERFAMILY:50249

EcoCyc

EcoCyc:EG10166

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10166

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000162

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0164

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0011616

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.


Categories

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