rfbB:Evolution: Difference between revisions

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<noinclude>{{TabsTop}}
<noinclude>{{TabsTop}}
{{Tab|Quickview|rfbB}}{{Tab|Gene|rfbB}}{{Tab|Gene Product(s)|rfbB}}{{Tab|Expression|rfbB}}{{Tab On|Evolution|rfbB}}{{Tab|On One Page|rfbB}}{{TabsBottom}}
{{Tab|Quickview|rfbB}}{{Tab|Gene|rfbB}}{{Tab|Gene Product(s)|rfbB}}{{Tab|Expression|rfbB}}{{Tab On|Evolution|rfbB}}{{Tab|On One Page|rfbB}}{{TabsBottom}}
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==Homologs in Other Organisms==
==Homologs in Other Organisms==
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="J46abd03a9038e"  class=" tableEdit Evolution_homologs_table" 
|- {{table heading style}}
|- {{table heading style}}
!Organism!!Homologs (Statistics)!!Comments
!|Organism!!Homologs (Statistics)!!Comments
|-
|-  
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''Apis mellifera''   
''Apis mellifera''   
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From Inparanoid:20070104  
From Inparanoid:20070104  
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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  
From Inparanoid:20070104  
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|-  
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''Caenorhabditis briggsae''   
''Caenorhabditis briggsae''   
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From Inparanoid:20070104  
From Inparanoid:20070104  
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''Caenorhabditis elegans''   
''Caenorhabditis elegans''   
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From Inparanoid:20070104  
From Inparanoid:20070104  
|-
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''Canis familiaris''   
''Canis familiaris''   
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From Inparanoid:20070104  
From Inparanoid:20070104  
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|-  
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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  
From Inparanoid:20070104  
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''Gallus gallus''   
''Gallus gallus''   
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From Inparanoid:20070104  
From Inparanoid:20070104  
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''Homo sapiens''   
''Homo sapiens''   
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From Inparanoid:20070104  
From Inparanoid:20070104  
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''Macaca mulatta''   
''Macaca mulatta''   
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From Inparanoid:20070104  
From Inparanoid:20070104  
|-
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''Monodelphis domestica''   
''Monodelphis domestica''   
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From Inparanoid:20070104  
From Inparanoid:20070104  
|-
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''Mus musculus''   
''Mus musculus''   
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From Inparanoid:20070104  
From Inparanoid:20070104  
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''Oryza gramene''   
''Oryza gramene''   
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From Inparanoid:20070104  
From Inparanoid:20070104  
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''Pan troglodytes''   
''Pan troglodytes''   
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From Inparanoid:20070104  
From Inparanoid:20070104  
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|-  
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''Rattus norvegicus''   
''Rattus norvegicus''   
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From Inparanoid:20070104  
From Inparanoid:20070104  
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''Schizosaccharomyces pombe''   
''Schizosaccharomyces pombe''   
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From Inparanoid:20070104  
From Inparanoid:20070104  
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''Takifugu rubripes''   
''Takifugu rubripes''   
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From Inparanoid:20070104  
From Inparanoid:20070104  
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''Tetraodon nigroviridis''   
''Tetraodon nigroviridis''   
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From Inparanoid:20070104  
From Inparanoid:20070104  
|-
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''Xenopus tropicalis''   
''Xenopus tropicalis''   
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From Inparanoid:20070104  
From Inparanoid:20070104  
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''Shigella flexneri''   
''Shigella flexneri''   
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From SHIGELLACYC  
From SHIGELLACYC  
|-class='sortbottom'
 
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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_416545&idtype=all&start=on&species=All&conf=0.05 InParanoid]
*[http://inparanoid.sbc.su.se/cgi-bin/gene_search.cgi?id=NP_416545&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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==Families==
==Families==
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="H46abd05ac8c71"  class=" tableEdit Gene_accessions_table" 
|- {{table_heading_style}}
|- {{table_heading_style}}
!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/PF01370 PF01370  NAD dependent epimerase/dehydratase family]
|
|-  
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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]])
|
|
[http://www.sanger.ac.uk/cgi-bin/Pfam/getacc?PF01370 PFAM:PF01370]
[http://supfam.cs.bris.ac.uk/SUPERFAMILY/cgi-bin/genome.cgi?sf=51735 SUPERFAMILY:51735]
|
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|-class='sortbottom'
|-
|[{{SERVER}}/colipedia/index.php/Special:TableEdit?id=421aa90e079fa326b6494f812ad13e79..R46a07cd10958d&page=&pagename={{FULLPAGENAMEE}} edit table] || ||
|
[[EcoCyc]]
|
EcoCyc:EG12412
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
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[[EcoGene]]
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EcoGene:EG12412
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
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[[RegulonDB]]
|
RegulonDB:ECK120002273
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
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[[EchoBASE]]
|
EchoBASE:EB2311
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
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[[ASAP]]
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ASAP:ABE-0006766
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
 
|- class="tableEdit_footer"
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<protect><!--Families_notes--></protect>
<protect><!--Families_notes--></protect>
===Notes===
===Notes===
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==Links==
==Links==
{{Evolution_links_default}}
{{BacktoTop}}
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!|Name!!URL!!Comments
 
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==References==
==References==
{{BacktoTop}}
{{RefHelp}}
{{RefHelp}}
<references/>
<references />
<noinclude>
__NOTOC__
__NOTOC__
[[Category:Genes with homologs in Apis mellifera ]][[Category:Genes with homologs in Arabidopsis thaliana ]][[Category:Genes with homologs in Bos taurus ]][[Category:Genes with homologs in Caenorhabditis briggsae ]][[Category:Genes with homologs in Caenorhabditis elegans ]][[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 Schizosaccharomyces pombe ]][[Category:Genes with homologs in Takifugu rubripes ]][[Category:Genes with homologs in Tetraodon nigroviridis ]][[Category:Genes with homologs in Xenopus tropicalis ]][[Category:Genes with homologs in Shigella flexneri ]]</noinclude>
===Categories===
{{BacktoTop}}
[[Category:Genes with homologs in Apis mellifera ]]
[[Category:Genes with homologs in Arabidopsis thaliana ]]
[[Category:Genes with homologs in Bos taurus ]]
[[Category:Genes with homologs in Caenorhabditis briggsae ]]
[[Category:Genes with homologs in Caenorhabditis elegans ]]
[[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 Schizosaccharomyces pombe ]]
[[Category:Genes with homologs in Takifugu rubripes ]]
[[Category:Genes with homologs in Tetraodon nigroviridis ]]
[[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

[back to top]


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

Organism Homologs (Statistics) Comments

Apis mellifera

  • ENSAPMP00000021860 (score: 1.000; bootstrap: 100%)
  • YP_026255 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • YP_026255 (score: 1.000; bootstrap: 100%)
  • AT1G78570 (score: 1.000; bootstrap: 99%)
  • AT1G53500 (score: 1.000; bootstrap: 99%)
  • AT3G14790 (score: 0.895)
  • AT1G63000 (score: 0.233)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000006984 (score: 1.000; bootstrap: 100%)
  • YP_026255 (score: 0.610)

From Inparanoid:20070104

Caenorhabditis briggsae

  • YP_026255 (score: 0.617)
  • WBGene00034706 (score: 1.000; bootstrap: 100%)
  • WBGene00026470 (score: 0.140)

From Inparanoid:20070104

Caenorhabditis elegans

  • YP_026255 (score: 0.618)
  • WBGene00018737 (score: 1.000; bootstrap: 100%)
  • WBGene00015298 (score: 0.125)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000007947 (score: 1.000; bootstrap: 100%)
  • YP_026255 (score: 0.611)

From Inparanoid:20070104

Danio rerio

  • YP_026255 (score: 1.000; bootstrap: 99%)
  • ZDB-GENE-030131-5718 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-040425-1388 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-040425-1387 (score: 0.653)

From Inparanoid:20070104

Dictyostelium discoideum

  • YP_026255 (score: 1.000; bootstrap: 99%)
  • DDB0231748 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000027264 (score: 1.000; bootstrap: 100%)
  • YP_026255 (score: 0.608)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000261296 (score: 1.000; bootstrap: 100%)
  • YP_026255 (score: 0.610)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000017161 (score: 1.000; bootstrap: 100%)
  • YP_026255 (score: 0.647)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000011711 (score: 1.000; bootstrap: 100%)
  • YP_026255 (score: 0.610)

From Inparanoid:20070104

Mus musculus

  • MGI:1923605 (score: 1.000; bootstrap: 100%)
  • YP_026255 (score: 0.604)

From Inparanoid:20070104

Oryza gramene

  • YP_026255 (score: 1.000; bootstrap: 100%)
  • Q6B6M1 (score: 1.000; bootstrap: 59%)
  • Q6B6L8 (score: 1.000; bootstrap: 52%)
  • Q8W3J1 (score: 0.907)
  • Q5QMG6 (score: 0.903)
  • Q6F3E9 (score: 0.819)
  • Q75PK7 (score: 0.787)
  • Q6B6L9 (score: 0.784)
  • Q6I683 (score: 0.778)
  • Q60E78 (score: 0.756)
  • Q75PK6 (score: 0.720)
  • Q8W3J0 (score: 0.540)
  • Q9FSE2 (score: 0.538)
  • Q6B6M0 (score: 0.532)
  • Q7XY21 (score: 0.531)
  • Q8W2F7 (score: 0.522)
  • Q5QMG5 (score: 0.317)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000010139 (score: 1.000; bootstrap: 100%)
  • YP_026255 (score: 0.610)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000012925 (score: 1.000; bootstrap: 100%)
  • YP_026255 (score: 0.605)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • YP_026255 (score: 0.645)
  • SPBPB2B21 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000157727 (score: 1.000; bootstrap: 98%)
  • YP_026255 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00025956001 (score: 1.000; bootstrap: 100%)
  • GSTENP00000105001 (score: 0.057)
  • YP_026255 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000009242 (score: 1.000; bootstrap: 100%)
  • YP_026255 (score: 0.340)

From Inparanoid:20070104

Shigella flexneri

RFBB

From SHIGELLACYC

edit table


Do-It-Yourself Web Tools


Notes

Families

[back to top]


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

Database Accession Notes

Pfam (EcoliWiki Page)

PF01370 NAD dependent epimerase/dehydratase family

Superfamily (EcoliWiki Page)

SUPERFAMILY:51735

EcoCyc

EcoCyc:EG12412

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12412

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002273

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2311

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006766

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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