ypjA:Evolution: Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
imported>WikiEntryBot
Automated import of articles
 
touch
 
(16 intermediate revisions by 3 users not shown)
Line 1: Line 1:
<!--PLEASE EDIT FROM THE SECTION OR TABLE EDIT LINKS...IF YOU SEE THIS MESSAGE, YOU'RE PROBABLY IN THE WRONG PLACE-->
<!--
***************************************************************************************************************************************************
*
*
*              PLEASE EDIT FROM THE SECTION OR TABLE EDIT LINKS...IF YOU SEE THIS MESSAGE,
*                            YOU'RE PROBABLY IN THE WRONG PLACE
*
*
***************************************************************************************************************************************************
-->{{#css:Suppresslinks.css}}<css>{{:Suppresslinks.css}}</css>
<noinclude>{{TabsTop}}
<noinclude>{{TabsTop}}
{{Tab|Quickview|ypjA}}{{Tab|Gene|ypjA}}{{Tab|Gene Product(s)|ypjA}}{{Tab|Expression|ypjA}}{{Tab On|Evolution|ypjA}}{{Tab|On One Page|ypjA}}{{TabsBottom}}
{{Tab|Quickview|ypjA}}{{Tab|Gene|ypjA}}{{Tab|Gene Product(s)|ypjA}}{{Tab|Expression|ypjA}}{{Tab On|Evolution|ypjA}}{{Tab|On One Page|ypjA}}{{TabsBottom}}
Line 12: Line 21:
</noinclude>
</noinclude>
==Homologs in Other Organisms==
==Homologs in Other Organisms==
<!--box uid=421aa90e079fa326b6494f812ad13e79..Y46a083970d182-->
{{BacktoTop}}
<!--*** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. *** -->
<!--box uid=421aa90e079fa326b6494f812ad13e79.49273.G46abe458138cf-->
{|class = 'sortable' {{Prettytable}} id='90733'
<!--
******************************************************************************************
*
*  ** 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="G46abe458138cf"  class=" tableEdit Evolution_homologs_table" 
|- {{table heading style}}
|- {{table heading style}}
!Organism!!Homologs (Statistics)!!Comments
!|Organism!!Homologs (Statistics)!!Comments
|-
|-  
|
|
''Apis mellifera''   
''Apis mellifera''   
Line 25: Line 40:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Bos taurus''   
''Bos taurus''   
Line 32: Line 47:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Caenorhabditis briggsae''   
''Caenorhabditis briggsae''   
Line 40: Line 55:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Caenorhabditis elegans''   
''Caenorhabditis elegans''   
Line 53: Line 68:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Canis familiaris''   
''Canis familiaris''   
Line 60: Line 75:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Ciona intestinalis''   
''Ciona intestinalis''   
Line 70: Line 85:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Dictyostelium discoideum''   
''Dictyostelium discoideum''   
Line 78: Line 93:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Monodelphis domestica''   
''Monodelphis domestica''   
Line 85: Line 100:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Mus musculus''   
''Mus musculus''   
Line 92: Line 107:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Schizosaccharomyces pombe''   
''Schizosaccharomyces pombe''   
Line 108: Line 123:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-
|-  
|
|
''Xenopus tropicalis''   
''Xenopus tropicalis''   
Line 117: Line 132:
|
|
From Inparanoid:20070104  
From Inparanoid:20070104  
|-class='sortbottom'
|-
|[{{SERVER}}/colipedia/index.php/Special:TableEdit?id=421aa90e079fa326b6494f812ad13e79..Y46a083970d182&page=&pagename={{FULLPAGENAMEE}} edit table] || ||
|
''E. coli'' O157
|
YPJA
|
From ECOO157CYC
 
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.49273.G46abe458138cf&page=49273&pagename={{FULLPAGENAMEE}}&type=&template=Evolution_homologs_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79..Y46a083970d182-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.49273.G46abe458138cf-->
{{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_417134&idtype=all&start=on&species=All&conf=0.05 InParanoid]
*[http://inparanoid.sbc.su.se/cgi-bin/gene_search.cgi?id=NP_417134&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 134: Line 157:


==Families==
==Families==
<!--box uid=421aa90e079fa326b6494f812ad13e79..I46a0839c1bc27-->
{{BacktoTop}}
<!--*** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. *** -->
<!--box uid=421aa90e079fa326b6494f812ad13e79.49273.E46abe465c913f-->
{|class = 'sortable' {{Prettytable}} id='90734'
<!--
******************************************************************************************
*
*  ** 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="E46abe465c913f"  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/PF03797 PF03797  Autotransporter beta-domain]
|
|-
|
[http://supfam.cs.bris.ac.uk/SUPERFAMILY/ Superfamily] ([[Superfamily|EcoliWiki Page]])
|
[http://supfam.cs.bris.ac.uk/SUPERFAMILY/cgi-bin/genome.cgi?sf=51126 SUPERFAMILY:51126]
|
|-
|
[http://supfam.cs.bris.ac.uk/SUPERFAMILY/ Superfamily] ([[Superfamily|EcoliWiki Page]])
|
[http://supfam.cs.bris.ac.uk/SUPERFAMILY/cgi-bin/genome.cgi?sf=103515 SUPERFAMILY:103515]
|
|-  
|
|
[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?PF03212 PFAM:PF03212]
[http://pfam.janelia.org/family/PF03212 PF03212 Pertactin]
|
|
   
   
|-class='sortbottom'
|-
|[{{SERVER}}/colipedia/index.php/Special:TableEdit?id=421aa90e079fa326b6494f812ad13e79..I46a0839c1bc27&page=&pagename={{FULLPAGENAMEE}} edit table] || ||
|
[[EcoCyc]]
|
EcoCyc:G7382
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[EcoGene]]
|
EcoGene:EG13213
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[RegulonDB]]
|
RegulonDB:ECK120003950
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[EchoBASE]]
|
EchoBASE:EB3005
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[ASAP]]
|
ASAP:ABE-0008713
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
 
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.49273.E46abe465c913f&page=49273&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79..I46a0839c1bc27-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.49273.E46abe465c913f-->
{{Evolution_families_table_help}}
 
<protect><!--Families_notes--></protect>
<protect><!--Families_notes--></protect>
===Notes===
===Notes===
Line 156: Line 242:


==Links==
==Links==
{{Evolution_links_default}}
{{BacktoTop}}
<!--box uid=421aa90e079fa326b6494f812ad13e79.49273.P46a827691290c-->
<!--
******************************************************************************************
*
*  ** 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="P46a827691290c"  class=" tableEdit Links_table" 
|- {{table_heading_style}}
!|Name!!URL!!Comments
 
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.49273.P46a827691290c&page=49273&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table]</span> || ||
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.49273.P46a827691290c-->
 
 
==References==
==References==
{{BacktoTop}}
{{RefHelp}}
{{RefHelp}}
<references/>
<references />
<noinclude>
__NOTOC__
__NOTOC__
[[Category:Genes with homologs in Apis mellifera ]][[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 Dictyostelium discoideum ]][[Category:Genes with homologs in Monodelphis domestica ]][[Category:Genes with homologs in Mus musculus ]][[Category:Genes with homologs in Schizosaccharomyces pombe ]][[Category:Genes with homologs in Xenopus tropicalis ]][[Category:Genes with homologs in E. coli O157]]</noinclude>
===Categories===
{{BacktoTop}}
[[Category:Genes with homologs in Apis mellifera ]]
[[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 Dictyostelium discoideum ]]
[[Category:Genes with homologs in Monodelphis domestica ]]
[[Category:Genes with homologs in Mus musculus ]]
[[Category:Genes with homologs in Schizosaccharomyces pombe ]]
[[Category:Genes with homologs in Xenopus tropicalis ]]
[[Category:Genes with homologs in E. coli O157]]

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

Apis mellifera

  • ENSAPMP00000010996 (score: 1.000; bootstrap: 100%)
  • ENSAPMP00000031667 (score: 0.060)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000038104 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis briggsae

  • YP_026164 (score: 0.092)
  • WBGene00041562 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00019146 (score: 1.000; bootstrap: 80%)
  • WBGene00021761 (score: 0.097)
  • WBGene00019273 (score: 0.080)
  • WBGene00019085 (score: 0.075)
  • WBGene00003058 (score: 0.074)
  • WBGene00020576 (score: 0.060)
  • WBGene00011522 (score: 0.052)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000022582 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000015132 (score: 1.000; bootstrap: 100%)
  • ENSCINP00000006485 (score: 0.101)
  • ENSCINP00000006407 (score: 0.099)
  • YP_026164 (score: 1.000; bootstrap: 50%)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0215928 (score: 1.000; bootstrap: 100%)
  • DDB0188625 (score: 0.055)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000001188 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Mus musculus

  • MGI:1929709 (score: 1.000; bootstrap: 55%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPAPB2C81 (score: 1.000; bootstrap: 100%)
  • SPBC12895 (score: 0.330)
  • SPCC1889c (score: 0.301)
  • SPBC9474 (score: 0.220)
  • SPBC13488c (score: 0.141)
  • SPAC9777c (score: 0.141)
  • SPCC17421 (score: 0.128)
  • SPAP11E102c (score: 0.127)
  • SPAC1F86 (score: 0.100)
  • SPBC21D106c (score: 0.054)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000023419 (score: 1.000; bootstrap: 71%)
  • ENSXETP00000050976 (score: 0.169)
  • YP_026164 (score: 1.000; bootstrap: 65%)

From Inparanoid:20070104

E. coli O157

YPJA

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)

PF03797 Autotransporter beta-domain

Superfamily (EcoliWiki Page)

SUPERFAMILY:51126

Superfamily (EcoliWiki Page)

SUPERFAMILY:103515

Pfam (EcoliWiki Page)

PF03212 Pertactin

EcoCyc

EcoCyc:G7382

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13213

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003950

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3005

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008713

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=ypjA:Evolution&oldid=1390877"