ndk:Evolution: Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older edit
imported>WikiEntryBot
Automated import of articles
touch
 
(13 intermediate revisions by 2 users not shown)
Line 25: Line 25:
<!--
<!--
******************************************************************************************
******************************************************************************************
*
*  
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*
*  
****************************************************************************************** -->
****************************************************************************************** -->{{Evolution_homologs_table_help}}
{|class = 'sortable' {{Prettytable}} id='211273'
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="Q46abdf3de32d3"  class=" tableEdit Evolution_homologs_table" 
|- {{table heading style}}
|- {{table heading style}}
!Organism!!Homologs (Statistics)!!Comments
!|Organism!!Homologs (Statistics)!!Comments
|-
|-  
|
|
''Anopheles gambiae''   
''Anopheles gambiae''   
Line 39: Line 39:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Apis mellifera''   
''Apis mellifera''   
Line 46: Line 46:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Arabidopsis thaliana''   
''Arabidopsis thaliana''   
Line 56: Line 56:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Bos taurus''   
''Bos taurus''   
Line 66: Line 66:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Caenorhabditis briggsae''   
''Caenorhabditis briggsae''   
Line 73: Line 73:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Caenorhabditis elegans''   
''Caenorhabditis elegans''   
Line 80: Line 80:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Canis familiaris''   
''Canis familiaris''   
Line 94: Line 94:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Ciona intestinalis''   
''Ciona intestinalis''   
Line 102: Line 102:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Danio rerio''   
''Danio rerio''   
Line 118: Line 118:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Dictyostelium discoideum''   
''Dictyostelium discoideum''   
Line 127: Line 127:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Drosophila melanogaster''   
''Drosophila melanogaster''   
Line 134: Line 134:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Drosophila pseudoobscura''   
''Drosophila pseudoobscura''   
Line 141: Line 141:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Gallus gallus''   
''Gallus gallus''   
Line 150: Line 150:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Homo sapiens''   
''Homo sapiens''   
Line 161: Line 161:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Macaca mulatta''   
''Macaca mulatta''   
Line 171: Line 171:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Monodelphis domestica''   
''Monodelphis domestica''   
Line 181: Line 181:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Mus musculus''   
''Mus musculus''   
Line 192: Line 192:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Oryza gramene''   
''Oryza gramene''   
Line 207: Line 207:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Pan troglodytes''   
''Pan troglodytes''   
Line 216: Line 216:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Rattus norvegicus''   
''Rattus norvegicus''   
Line 228: Line 228:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Saccharomyces cerevisiae''   
''Saccharomyces cerevisiae''   
Line 235: Line 235:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Schizosaccharomyces pombe''   
''Schizosaccharomyces pombe''   
Line 242: Line 242:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Takifugu rubripes''   
''Takifugu rubripes''   
Line 252: Line 252:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Tetraodon nigroviridis''   
''Tetraodon nigroviridis''   
Line 261: Line 261:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Xenopus tropicalis''   
''Xenopus tropicalis''   
Line 269: Line 269:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Shigella flexneri''   
''Shigella flexneri''   
Line 276: Line 276:
|
|
From SHIGELLACYC  
From SHIGELLACYC  
|-
|-  
|
|
''E. coli'' O157  
''E. coli'' O157  
Line 283: Line 283:
|
|
From ECOO157CYC  
From ECOO157CYC  
|-class='sortbottom'
 
|[{{SERVER}}/colipedia/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.49013.Q46abdf3de32d3&page=49013&pagename={{FULLPAGENAMEE}} edit table] || ||
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.49013.Q46abdf3de32d3&page=49013&pagename={{FULLPAGENAMEE}}&type=&template=Evolution_homologs_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.49013.Q46abdf3de32d3-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.49013.Q46abdf3de32d3-->
{{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_417013&idtype=all&start=on&species=All&conf=0.05 InParanoid]
*[http://inparanoid.sbc.su.se/cgi-bin/gene_search.cgi?id=NP_417013&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 304: Line 305:
<!--
<!--
******************************************************************************************
******************************************************************************************
*
*  
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*
*  
****************************************************************************************** -->
****************************************************************************************** -->{{Gene_accessions_help}}
{|class = 'sortable' {{Prettytable}} id='211274'
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="Q46abdf6f1cd82"  class=" tableEdit Gene_accessions_table" 
|- {{table_heading_style}}
|- {{table_heading_style}}
!Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-
|-
|
[http://pfam.janelia.org/ Pfam] ([[Pfam|EcoliWiki Page]])
|
[http://pfam.janelia.org/family/PF00334 PF00334  Nucleoside diphosphate kinase]
|
|-
|
[http://www.pantherdb.org/ Panther] ([[Panther|EcoliWiki Page]])
|
[http://www.pantherdb.org/panther/family.do?clsAccession=PTHR11349:SF26 PTHR11349:SF26]
|
|-  
|
|
[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?PF00334 PFAM:PF00334]
[http://supfam.cs.bris.ac.uk/SUPERFAMILY/cgi-bin/genome.cgi?sf=54919 SUPERFAMILY:54919]
|
|
   
   
|-class='sortbottom'
|-
|[{{SERVER}}/colipedia/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.49013.Q46abdf6f1cd82&page=49013&pagename={{FULLPAGENAMEE}} edit table] || ||
|
[[EcoCyc]]
|
EcoCyc:EG10650
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[EcoGene]]
|
EcoGene:EG10650
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[RegulonDB]]
|
RegulonDB:ECK120000643
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[EchoBASE]]
|
EchoBASE:EB0644
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[ASAP]]
|
ASAP:ABE-0008291
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
 
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.49013.Q46abdf6f1cd82&page=49013&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.49013.Q46abdf6f1cd82-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.49013.Q46abdf6f1cd82-->
{{Evolution_families_table_help}}
 
<protect><!--Families_notes--></protect>
<protect><!--Families_notes--></protect>
===Notes===
===Notes===
Line 332: Line 383:
<!--
<!--
******************************************************************************************
******************************************************************************************
*
*  
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*
*  
****************************************************************************************** -->
****************************************************************************************** -->
{|class = 'sortable' {{Prettytable}} id='112918'
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="I46a823536c12c"  class=" tableEdit Links_table" 
|- {{table_heading_style}}
|- {{table_heading_style}}
!Name!!URL!!Comments
!|Name!!URL!!Comments
|-class='sortbottom'
 
|[{{SERVER}}/colipedia/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.49013.I46a823536c12c&page=49013&pagename={{FULLPAGENAMEE}} edit table] || ||
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.49013.I46a823536c12c&page=49013&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.49013.I46a823536c12c-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.49013.I46a823536c12c-->
{{Links_help}}
 


==References==
==References==
{{BacktoTop}}
{{BacktoTop}}
{{RefHelp}}
{{RefHelp}}
<references/>
<references />
<noinclude>
__NOTOC__
__NOTOC__
</noinclude>
===Categories===
===Categories===
{{BacktoTop}}
{{BacktoTop}}

Latest revision as of 08:34, 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

  • ENSANGP00000011253 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000012462 (score: 1.000; bootstrap: 98%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT4G09320 (score: 1.000; bootstrap: 88%)
  • AT5G63310 (score: 0.314)
  • AT4G11010 (score: 0.305)
  • AT4G23900 (score: 0.300)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000022012 (score: 1.000; bootstrap: 96%)
  • ENSBTAP00000006104 (score: 0.450)
  • ENSBTAP00000021907 (score: 0.427)
  • ENSBTAP00000022066 (score: 0.307)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00025328 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00009119 (score: 1.000; bootstrap: 99%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000023323 (score: 1.000; bootstrap: 88%)
  • ENSCAFP00000025499 (score: 1.000; bootstrap: 88%)
  • ENSCAFP00000006112 (score: 0.866)
  • ENSCAFP00000000055 (score: 0.778)
  • ENSCAFP00000023696 (score: 0.763)
  • ENSCAFP00000028829 (score: 0.356)
  • ENSCAFP00000029117 (score: 0.314)
  • ENSCAFP00000006446 (score: 0.294)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000002194 (score: 1.000; bootstrap: 94%)
  • ENSCINP00000011619 (score: 0.543)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-000210-34 (score: 1.000; bootstrap: 93%)
  • ZDB-CDNA-040801-184 (score: 1.000; bootstrap: 92%)
  • ZDB-CDNA-040425-581 (score: 0.454)
  • ZDB-GENE-000210-32 (score: 0.436)
  • ZDB-CDNA-040425-1577 (score: 0.399)
  • ZDB-GENE-030131-7656 (score: 0.399)
  • ZDB-CDNA-040425-567 (score: 0.376)
  • ZDB-GENE-000210-33 (score: 0.376)
  • ZDB-CDNA-040425-1975 (score: 0.307)
  • ZDB-GENE-040426-1043 (score: 0.307)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0185051 (score: 1.000; bootstrap: 99%)
  • DDB0217316 (score: 1.000; bootstrap: 99%)
  • DDB0214817 (score: 0.256)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0000150 (score: 1.000; bootstrap: 98%)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA18797-PA (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000003531 (score: 1.000; bootstrap: 72%)
  • ENSGALP00000034078 (score: 0.440)
  • ENSGALP00000011810 (score: 0.393)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000219302 (score: 1.000; bootstrap: 95%)
  • ENSP00000337060 (score: 0.445)
  • ENSP00000312446 (score: 0.423)
  • ENSP00000219479 (score: 0.336)
  • ENSP00000242630 (score: 0.273)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000002594 (score: 1.000; bootstrap: 90%)
  • ENSMMUP00000005145 (score: 0.301)
  • ENSMMUP00000000824 (score: 0.268)
  • ENSMMUP00000025232 (score: 0.207)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000020158 (score: 1.000; bootstrap: 94%)
  • ENSMODP00000015750 (score: 0.458)
  • ENSMODP00000020808 (score: 0.369)
  • ENSMODP00000015743 (score: 0.360)

From Inparanoid:20070104

Mus musculus

  • MGI:1930182 (score: 1.000; bootstrap: 93%)
  • MGI:97355 (score: 0.406)
  • MGI:97356 (score: 0.397)
  • MGI:3648428 (score: 0.374)
  • MGI:1931148 (score: 0.338)

From Inparanoid:20070104

Oryza gramene

  • Q9AY50 (score: 1.000; bootstrap: 89%)
  • Q7XC37 (score: 1.000; bootstrap: 88%)
  • Q9LKM0 (score: 0.817)
  • P93554 (score: 0.806)
  • Q6ZHK3 (score: 0.706)
  • Q07661 (score: 0.706)
  • Q6DQV1 (score: 0.700)
  • Q762A0 (score: 0.456)
  • Q5TKF4 (score: 0.356)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000015997 (score: 1.000; bootstrap: 94%)
  • ENSPTRP00000009382 (score: 0.478)
  • ENSPTRP00000015998 (score: 0.098)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000021650 (score: 1.000; bootstrap: 94%)
  • ENSRNOP00000003611 (score: 1.000; bootstrap: 92%)
  • ENSRNOP00000003658 (score: 0.854)
  • ENSRNOP00000001641 (score: 0.693)
  • ENSRNOP00000039639 (score: 0.609)
  • ENSRNOP00000009166 (score: 0.573)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YKL067W (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPAC8067 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000150656 (score: 1.000; bootstrap: 93%)
  • NEWSINFRUP00000159513 (score: 1.000; bootstrap: 92%)
  • NEWSINFRUP00000129296 (score: 0.375)
  • NEWSINFRUP00000158595 (score: 0.304)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00004660001 (score: 1.000; bootstrap: 92%)
  • GSTENP00021805001 (score: 0.491)
  • GSTENP00035067001 (score: 0.303)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000024764 (score: 1.000; bootstrap: 72%)
  • ENSXETP00000022726 (score: 0.369)

From Inparanoid:20070104

Shigella flexneri

NDK

From SHIGELLACYC

E. coli O157

NDK

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)

PF00334 Nucleoside diphosphate kinase

Panther (EcoliWiki Page)

PTHR11349:SF26

Superfamily (EcoliWiki Page)

SUPERFAMILY:54919

EcoCyc

EcoCyc:EG10650

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10650

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000643

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0644

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008291

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=ndk:Evolution&oldid=1390781"