hpt:Evolution: Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older edit
imported>WikiEntryBot
Automated import of articles
touch
 
(14 intermediate revisions by 3 users not shown)
Line 23: Line 23:
{{BacktoTop}}
{{BacktoTop}}
<!--box uid=421aa90e079fa326b6494f812ad13e79.44235.Q46ab99c093c18-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.44235.Q46ab99c093c18-->
<!--*** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. *** -->
<!--
{|class = 'sortable' {{Prettytable}} id='207157'
******************************************************************************************
*
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*
****************************************************************************************** -->{{Evolution_homologs_table_help}}
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="Q46ab99c093c18"  class=" tableEdit Evolution_homologs_table" 
|- {{table heading style}}
|- {{table heading style}}
!Organism!!Homologs (Statistics)!!Comments
!|Organism!!Homologs (Statistics)!!Comments
|-
|-  
|
|
''Arabidopsis thaliana''   
''Arabidopsis thaliana''   
Line 34: Line 39:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Bos taurus''   
''Bos taurus''   
Line 45: Line 50:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Caenorhabditis briggsae''   
''Caenorhabditis briggsae''   
Line 52: Line 57:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Caenorhabditis elegans''   
''Caenorhabditis elegans''   
Line 59: Line 64:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Canis familiaris''   
''Canis familiaris''   
Line 67: Line 72:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Ciona intestinalis''   
''Ciona intestinalis''   
Line 74: Line 79:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Danio rerio''   
''Danio rerio''   
Line 88: Line 93:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Dictyostelium discoideum''   
''Dictyostelium discoideum''   
Line 95: Line 100:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Gallus gallus''   
''Gallus gallus''   
Line 104: Line 109:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Homo sapiens''   
''Homo sapiens''   
Line 112: Line 117:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Macaca mulatta''   
''Macaca mulatta''   
Line 119: Line 124:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Monodelphis domestica''   
''Monodelphis domestica''   
Line 128: Line 133:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Mus musculus''   
''Mus musculus''   
Line 135: Line 140:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Pan troglodytes''   
''Pan troglodytes''   
Line 143: Line 148:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Rattus norvegicus''   
''Rattus norvegicus''   
Line 151: Line 156:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Takifugu rubripes''   
''Takifugu rubripes''   
Line 161: Line 166:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Tetraodon nigroviridis''   
''Tetraodon nigroviridis''   
Line 173: Line 178:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Xenopus tropicalis''   
''Xenopus tropicalis''   
Line 181: Line 186:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Shigella flexneri''   
''Shigella flexneri''   
Line 188: Line 193:
|
|
From SHIGELLACYC  
From SHIGELLACYC  
|-class='sortbottom'
|-
|[{{SERVER}}/colipedia/index.php/Special:TableEdit?id=421aa90e079fa326b6494f812ad13e79.44235.Q46ab99c093c18&page=44235&pagename={{FULLPAGENAMEE}} edit table] || ||
|
''E. coli'' O157
|
HPT
|
From ECOO157CYC
 
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.44235.Q46ab99c093c18&page=44235&pagename={{FULLPAGENAMEE}}&type=&template=Evolution_homologs_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.44235.Q46ab99c093c18-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.44235.Q46ab99c093c18-->
{{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_414667&idtype=all&start=on&species=All&conf=0.05 InParanoid]
*[http://inparanoid.sbc.su.se/cgi-bin/gene_search.cgi?id=NP_414667&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]


Line 207: Line 220:
{{BacktoTop}}
{{BacktoTop}}
<!--box uid=421aa90e079fa326b6494f812ad13e79.44235.Z46ab99db77216-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.44235.Z46ab99db77216-->
<!--*** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. *** -->
<!--
{|class = 'sortable' {{Prettytable}} id='207158'
******************************************************************************************
*
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*
****************************************************************************************** -->{{Gene_accessions_help}}
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="Z46ab99db77216"  class=" tableEdit Gene_accessions_table" 
|- {{table_heading_style}}
|- {{table_heading_style}}
!Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-
|-  
|
|
[http://www.sanger.ac.uk/Software/Pfam/ PFAM] ([[PFAM|EcoliWiki Page]])  
[http://pfam.janelia.org/ Pfam] ([[Pfam|EcoliWiki Page]])
|
|
[http://www.sanger.ac.uk/cgi-bin/Pfam/getacc?PF00156 PFAM:PF00156]
[http://pfam.janelia.org/family/PF00156 PF00156 Phosphoribosyl transferase domain]
|
|
   
   
|-class='sortbottom'
|-  
|[{{SERVER}}/colipedia/index.php/Special:TableEdit?id=421aa90e079fa326b6494f812ad13e79.44235.Z46ab99db77216&page=44235&pagename={{FULLPAGENAMEE}} edit table] || ||
|
[http://www.pantherdb.org/ Panther] ([[Panther|EcoliWiki Page]])
|
[http://www.pantherdb.org/panther/family.do?clsAccession=PTHR22573:SF9 PTHR22573:SF9]
|
|-
|
[http://supfam.cs.bris.ac.uk/SUPERFAMILY/ Superfamily] ([[Superfamily|EcoliWiki Page]])
|
[http://supfam.cs.bris.ac.uk/SUPERFAMILY/cgi-bin/genome.cgi?sf=53271 SUPERFAMILY:53271]
|
|-
|
[[EcoCyc]]
|
EcoCyc:EG20098
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[EcoGene]]
|
EcoGene:EG20098
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[RegulonDB]]
|
RegulonDB:ECK120002443
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[EchoBASE]]
|
EchoBASE:EB4143
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[ASAP]]
|
ASAP:ABE-0000440
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
 
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.44235.Z46ab99db77216&page=44235&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.44235.Z46ab99db77216-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.44235.Z46ab99db77216-->
{{Evolution_families_table_help}}
 
<protect><!--Families_notes--></protect>
<protect><!--Families_notes--></protect>
===Notes===
===Notes===
Line 230: Line 298:
{{BacktoTop}}
{{BacktoTop}}
<!--box uid=421aa90e079fa326b6494f812ad13e79.44235.T46a7e9e9ba693-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.44235.T46a7e9e9ba693-->
<!--*** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. *** -->
<!--
{|class = 'sortable' {{Prettytable}} id='107976'
******************************************************************************************
*
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*
****************************************************************************************** -->
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="T46a7e9e9ba693"  class=" tableEdit Links_table" 
|- {{table_heading_style}}
|- {{table_heading_style}}
!Name!!URL!!Comments
!|Name!!URL!!Comments
|-class='sortbottom'
 
|[{{SERVER}}/colipedia/index.php/Special:TableEdit?id=421aa90e079fa326b6494f812ad13e79.44235.T46a7e9e9ba693&page=44235&pagename={{FULLPAGENAMEE}} edit table] || ||
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.44235.T46a7e9e9ba693&page=44235&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.44235.T46a7e9e9ba693-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.44235.T46a7e9e9ba693-->
{{Links_help}}
 


==References==
==References==
{{BacktoTop}}
{{BacktoTop}}
{{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 Caenorhabditis briggsae ]][[Category:Genes with homologs in Caenorhabditis elegans ]][[Category:Genes with homologs in Canis familiaris ]][[Category:Genes with homologs in Ciona intestinalis ]][[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 Pan troglodytes ]][[Category:Genes with homologs in Rattus norvegicus ]][[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 ]][[Category:Genes with homologs in E. coli O157]]</noinclude>
===Categories===
{{BacktoTop}}
[[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 Ciona intestinalis ]]
[[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 Pan troglodytes ]]
[[Category:Genes with homologs in Rattus norvegicus ]]
[[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 ]]
[[Category:Genes with homologs in E. coli O157]]

Latest revision as of 08:29, 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

Arabidopsis thaliana

  • AT1G71750 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000006872 (score: 1.000; bootstrap: 100%)
  • ENSBTAP00000019547 (score: 0.868)
  • ENSBTAP00000030572 (score: 0.801)
  • ENSBTAP00000028120 (score: 0.730)
  • ENSBTAP00000019950 (score: 0.473)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00038963 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00013690 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000027831 (score: 1.000; bootstrap: 100%)
  • ENSCAFP00000006328 (score: 0.508)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000006233 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Danio rerio

  • ZDB-CDNA-040425-2865 (score: 1.000; bootstrap: 100%)
  • ZDB-GENE-040426-1918 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-040625-14 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-040625-25 (score: 0.695)
  • ZDB-GENE-040625-17 (score: 0.695)
  • ZDB-CDNA-040625-196 (score: 0.563)
  • ZDB-GENE-980526-324 (score: 0.563)
  • ZDB-CDNA-040425-380 (score: 0.560)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0216388 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000009829 (score: 1.000; bootstrap: 100%)
  • ENSGALP00000033179 (score: 0.657)
  • ENSGALP00000030603 (score: 0.570)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000298556 (score: 1.000; bootstrap: 100%)
  • ENSP00000318602 (score: 0.579)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000010889 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000019043 (score: 1.000; bootstrap: 100%)
  • ENSMODP00000010875 (score: 0.550)
  • ENSMODP00000002497 (score: 0.345)

From Inparanoid:20070104

Mus musculus

  • MGI:96217 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000004004 (score: 1.000; bootstrap: 100%)
  • ENSPTRP00000041182 (score: 0.239)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000050910 (score: 1.000; bootstrap: 100%)
  • ENSRNOP00000037266 (score: 0.560)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000155659 (score: 1.000; bootstrap: 100%)
  • NEWSINFRUP00000176529 (score: 0.378)
  • NEWSINFRUP00000136250 (score: 0.320)
  • NEWSINFRUP00000136242 (score: 0.314)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00028357001 (score: 1.000; bootstrap: 100%)
  • GSTENP00012473001 (score: 0.504)
  • GSTENP00022748001 (score: 0.343)
  • GSTENP00010877001 (score: 0.287)
  • GSTENP00025492001 (score: 0.199)
  • GSTENP00025491001 (score: 0.108)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000042790 (score: 1.000; bootstrap: 100%)
  • ENSXETP00000012985 (score: 0.366)

From Inparanoid:20070104

Shigella flexneri

HPT

From SHIGELLACYC

E. coli O157

HPT

From ECOO157CYC

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)

PF00156 Phosphoribosyl transferase domain

Panther (EcoliWiki Page)

PTHR22573:SF9

Superfamily (EcoliWiki Page)

SUPERFAMILY:53271

EcoCyc

EcoCyc:EG20098

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG20098

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002443

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB4143

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000440

Escherichia coli str. K-12 substr. MG1655

edit table


Notes

Links

[back to top]



References

[back to top]


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


Categories

[back to top]


Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=hpt:Evolution&oldid=1388913"