rph: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="L46ac06f9aae12"  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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From Inparanoid:20070104  
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''Apis mellifera''   
''Apis mellifera''   
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From Inparanoid:20070104  
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''Arabidopsis thaliana''   
''Arabidopsis thaliana''   
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From Inparanoid:20070104  
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''Bos taurus''   
''Bos taurus''   
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From Inparanoid:20070104  
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''Caenorhabditis briggsae''   
''Caenorhabditis briggsae''   
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From Inparanoid:20070104  
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''Caenorhabditis elegans''   
''Caenorhabditis elegans''   
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From Inparanoid:20070104  
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''Canis familiaris''   
''Canis familiaris''   
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From Inparanoid:20070104  
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''Danio rerio''   
''Danio rerio''   
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From Inparanoid:20070104  
From Inparanoid:20070104  
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''Dictyostelium discoideum''   
''Dictyostelium discoideum''   
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From Inparanoid:20070104  
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''Homo sapiens''   
''Homo sapiens''   
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''Macaca mulatta''   
''Macaca mulatta''   
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From Inparanoid:20070104  
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''Monodelphis domestica''   
''Monodelphis domestica''   
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From Inparanoid:20070104  
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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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From Inparanoid:20070104  
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''Rattus norvegicus''   
''Rattus norvegicus''   
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''Xenopus tropicalis''   
''Xenopus tropicalis''   
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From Inparanoid:20070104  
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''Shigella flexneri''   
''Shigella flexneri''   
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From SHIGELLACYC  
From SHIGELLACYC  
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''E. coli'' O157  
''E. coli'' O157  
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From ECOO157CYC  
From ECOO157CYC  
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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_418100&idtype=all&start=on&species=All&conf=0.05 InParanoid]
*[http://inparanoid.sbc.su.se/cgi-bin/gene_search.cgi?id=NP_418100&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/PF03725 PF03725  3' exoribonuclease family, domain 2]
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[http://pfam.janelia.org/ Pfam] ([[Pfam|EcoliWiki Page]])
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[http://pfam.janelia.org/family/PF01138 PF01138  3' exoribonuclease family, domain 1]
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[http://www.sanger.ac.uk/Software/Pfam/ PFAM] ([[PFAM|EcoliWiki Page]])
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[http://www.sanger.ac.uk/cgi-bin/Pfam/getacc?PF01138 PFAM:PF01138]
[http://supfam.cs.bris.ac.uk/SUPERFAMILY/ Superfamily] ([[Superfamily|EcoliWiki Page]])
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[http://supfam.cs.bris.ac.uk/SUPERFAMILY/cgi-bin/genome.cgi?sf=54211 SUPERFAMILY:54211]
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[http://supfam.cs.bris.ac.uk/SUPERFAMILY/ Superfamily] ([[Superfamily|EcoliWiki Page]])
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[http://supfam.cs.bris.ac.uk/SUPERFAMILY/cgi-bin/genome.cgi?sf=55666 SUPERFAMILY:55666]
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[[EcoCyc]]
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EcoCyc:EG10863
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[[EcoGene]]
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EcoGene:EG10863
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[[RegulonDB]]
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RegulonDB:ECK120000854
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[[EchoBASE]]
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EchoBASE:EB0856
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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-0011909
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
 
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<protect><!--Families_notes--></protect>
<protect><!--Families_notes--></protect>
===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

  • ENSANGP00000009222 (score: 1.000; bootstrap: 100%)
  • ENSANGP00000017010 (score: 1.000; bootstrap: 100%)
  • ENSANGP00000026025 (score: 0.101)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000019685 (score: 1.000; bootstrap: 100%)
  • ENSAPMP00000000301 (score: 0.065)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT3G61620 (score: 1.000; bootstrap: 100%)
  • AT4G27490 (score: 0.061)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000019451 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00025010 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00007201 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000002193 (score: 1.000; bootstrap: 100%)
  • ENSCAFP00000007456 (score: 0.054)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-040426-1702 (score: 1.000; bootstrap: 55%)
  • ZDB-CDNA-040425-2642 (score: 1.000; bootstrap: 55%)
  • ZDB-CDNA-050522-362 (score: 0.134)
  • ZDB-CDNA-050703-13 (score: 0.134)
  • ZDB-GENE-050522-362 (score: 0.134)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0183823 (score: 1.000; bootstrap: 100%)
  • DDB0185805 (score: 0.094)
  • DDB0216807 (score: 0.086)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000315476 (score: 1.000; bootstrap: 100%)
  • ENSP00000288063 (score: 0.112)
  • ENSP00000221233 (score: 0.067)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000009386 (score: 1.000; bootstrap: 100%)
  • ENSMMUP00000018844 (score: 0.059)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000013076 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Mus musculus

  • MGI:1923576 (score: 1.000; bootstrap: 100%)
  • MGI:1919794 (score: 0.110)
  • MGI:107889 (score: 0.072)

From Inparanoid:20070104

Oryza gramene

  • Q6K293 (score: 1.000; bootstrap: 100%)
  • Q75LC8 (score: 0.080)
  • Q69UI6 (score: 0.080)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000035368 (score: 1.000; bootstrap: 100%)
  • ENSPTRP00000014169 (score: 0.112)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000016464 (score: 1.000; bootstrap: 100%)
  • ENSRNOP00000025179 (score: 0.118)
  • ENSRNOP00000028026 (score: 0.061)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000015321 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

RPH

From SHIGELLACYC

E. coli O157

RPH

From ECOO157CYC

edit table


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)

PF03725 3' exoribonuclease family, domain 2

Pfam (EcoliWiki Page)

PF01138 3' exoribonuclease family, domain 1

Superfamily (EcoliWiki Page)

SUPERFAMILY:54211

Superfamily (EcoliWiki Page)

SUPERFAMILY:55666

EcoCyc

EcoCyc:EG10863

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10863

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000854

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0856

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0011909

Escherichia coli str. K-12 substr. MG1655

edit table


Notes

Links

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References

[back to top]


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


Categories

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