rfbD: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="O46abd024410e6"  class=" tableEdit Evolution_homologs_table" 
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!Organism!!Homologs (Statistics)!!Comments
!|Organism!!Homologs (Statistics)!!Comments
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''Arabidopsis thaliana''   
''Arabidopsis thaliana''   
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From Inparanoid:20070104  
From Inparanoid:20070104  
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''Bos taurus''   
''Bos taurus''   
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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  
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''Dictyostelium discoideum''   
''Dictyostelium discoideum''   
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From Inparanoid:20070104  
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''Gallus gallus''   
''Gallus gallus''   
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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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From Inparanoid:20070104  
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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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''Takifugu rubripes''   
''Takifugu rubripes''   
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''Xenopus tropicalis''   
''Xenopus tropicalis''   
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''Shigella flexneri''   
''Shigella flexneri''   
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From SHIGELLACYC  
From SHIGELLACYC  
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===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_416544&idtype=all&start=on&species=All&conf=0.05 InParanoid]
*[http://inparanoid.sbc.su.se/cgi-bin/gene_search.cgi?id=NP_416544&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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|- {{table_heading_style}}
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!Database!!Accession!!Notes
!|Database!!Accession!!Notes
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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=51735 SUPERFAMILY:51735]
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[http://www.sanger.ac.uk/Software/Pfam/ PFAM] ([[PFAM|EcoliWiki Page]])  
[http://www.pantherdb.org/ Panther] ([[Panther|EcoliWiki Page]])
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[http://www.sanger.ac.uk/cgi-bin/Pfam/getacc?PF04321 PFAM:PF04321]
[http://www.pantherdb.org/panther/family.do?clsAccession=PTHR10491:SF0 PTHR10491:SF0]
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[http://pfam.janelia.org/ Pfam] ([[Pfam|EcoliWiki Page]])
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[http://pfam.janelia.org/family/PF04321 PF04321  RmlD substrate binding domain]
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[[EcoCyc]]
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EcoCyc:EG12411
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[[EcoGene]]
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EcoGene:EG12411
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[[RegulonDB]]
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RegulonDB:ECK120002272
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[[EchoBASE]]
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EchoBASE:EB2310
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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-0006764
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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==
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{{RefHelp}}
{{RefHelp}}
<references/>
<references />
<noinclude>
__NOTOC__
__NOTOC__
[[Category:Genes with homologs in Arabidopsis thaliana ]][[Category:Genes with homologs in Bos taurus ]][[Category:Genes with homologs in Canis familiaris ]][[Category:Genes with homologs in Danio rerio ]][[Category:Genes with homologs in Dictyostelium discoideum ]][[Category:Genes with homologs in Gallus gallus ]][[Category:Genes with homologs in Homo sapiens ]][[Category:Genes with homologs in Macaca mulatta ]][[Category:Genes with homologs in Monodelphis domestica ]][[Category:Genes with homologs in Mus musculus ]][[Category:Genes with homologs in Oryza gramene ]][[Category:Genes with homologs in Pan troglodytes ]][[Category:Genes with homologs in Rattus norvegicus ]][[Category:Genes with homologs in Takifugu rubripes ]][[Category:Genes with homologs in Xenopus tropicalis ]][[Category:Genes with homologs in Shigella flexneri ]]</noinclude>
===Categories===
{{BacktoTop}}
[[Category:Genes with homologs in Arabidopsis thaliana ]]
[[Category:Genes with homologs in Bos taurus ]]
[[Category:Genes with homologs in Canis familiaris ]]
[[Category:Genes with homologs in Danio rerio ]]
[[Category:Genes with homologs in Dictyostelium discoideum ]]
[[Category:Genes with homologs in Gallus gallus ]]
[[Category:Genes with homologs in Homo sapiens ]]
[[Category:Genes with homologs in Macaca mulatta ]]
[[Category:Genes with homologs in Monodelphis domestica ]]
[[Category:Genes with homologs in Mus musculus ]]
[[Category:Genes with homologs in Oryza gramene ]]
[[Category:Genes with homologs in Pan troglodytes ]]
[[Category:Genes with homologs in Rattus norvegicus ]]
[[Category:Genes with homologs in Takifugu rubripes ]]
[[Category:Genes with homologs in Xenopus tropicalis ]]
[[Category:Genes with homologs in Shigella flexneri ]]

Latest revision as of 08:33, 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

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

Organism Homologs (Statistics) Comments

Arabidopsis thaliana

  • AT4G00560 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000009891 (score: 1.000; bootstrap: 100%)
  • ENSBTAP00000016399 (score: 0.975)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000025303 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-050320-38 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-050320-38 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0231749 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000002680 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000325425 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000018374 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000009445 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Mus musculus

  • MGI:1913667 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Oryza gramene

  • Q6K7R8 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000029903 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000004269 (score: 1.000; bootstrap: 100%)
  • ENSRNOP00000044920 (score: 0.400)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000150935 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000032976 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

RFBD

From SHIGELLACYC

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

Superfamily (EcoliWiki Page)

SUPERFAMILY:51735

Panther (EcoliWiki Page)

PTHR10491:SF0

Pfam (EcoliWiki Page)

PF04321 RmlD substrate binding domain

EcoCyc

EcoCyc:EG12411

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12411

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002272

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2310

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006764

Escherichia coli str. K-12 substr. MG1655

edit table


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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