dnaX:Evolution: Difference between revisions

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<noinclude>{{TabsTop}}
<noinclude>{{TabsTop}}
{{Tab|Quickview|dnaX}}{{Tab|Gene|dnaX}}{{Tab|Gene Product(s)|dnaX}}{{Tab|Expression|dnaX}}{{Tab On|Evolution|dnaX}}{{Tab|On One Page|dnaX}}{{TabsBottom}}
{{Tab|Quickview|dnaX}}{{Tab|Gene|dnaX}}{{Tab|Gene Product(s)|dnaX}}{{Tab|Expression|dnaX}}{{Tab On|Evolution|dnaX}}{{Tab|On One Page|dnaX}}{{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="U46aba30a80dc3"  class=" tableEdit Evolution_homologs_table" 
|- {{table heading style}}
|- {{table heading style}}
!Organism!!Homologs (Statistics)!!Comments
!|Organism!!Homologs (Statistics)!!Comments
|-
|-  
|
|
''Shigella flexneri''   
''Shigella flexneri''   
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From SHIGELLACYC  
From SHIGELLACYC  
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''E. coli'' O157
|
DNAX
|
From ECOO157CYC
|-
|
''Anopheles gambiae'' 
|
* ENSANGP00000009446 (score: 1.000; bootstrap: 100%)
* ENSANGP00000009970 (score: 0.227)
* ENSANGP00000020452 (score: 0.200)
* ENSANGP00000019592 (score: 0.060)
|
From Inparanoid:20070104
|-
|
''Apis mellifera'' 
|
* ENSAPMP00000020376 (score: 1.000; bootstrap: 100%)
|
From Inparanoid:20070104
|-
|
''Arabidopsis thaliana'' 
|
* AT4G24790 (score: 1.000; bootstrap: 99%)
* AT1G14460 (score: 0.150)
* AT2G02480 (score: 0.145)
* AT5G45720 (score: 0.116)
* AT4G18820 (score: 0.108)
|
From Inparanoid:20070104
|-
|
''Bos taurus'' 
|
* ENSBTAP00000029589 (score: 1.000; bootstrap: 100%)
* ENSBTAP00000019600 (score: 0.242)
* ENSBTAP00000024740 (score: 0.220)
|
From Inparanoid:20070104
|-
|
''Caenorhabditis briggsae'' 
|
* WBGene00041450 (score: 1.000; bootstrap: 100%)
* WBGene00041400 (score: 0.204)
* WBGene00042646 (score: 0.163)
* WBGene00036412 (score: 0.163)
* WBGene00025012 (score: 0.056)
|
From Inparanoid:20070104
|-
|
''Caenorhabditis elegans'' 
|
* WBGene00018409 (score: 1.000; bootstrap: 100%)
* WBGene00004340 (score: 0.184)
* WBGene00004338 (score: 0.182)
* WBGene00004339 (score: 0.062)
|
From Inparanoid:20070104
|-
|
''Canis familiaris'' 
|
* ENSCAFP00000014551 (score: 1.000; bootstrap: 100%)
* ENSCAFP00000020162 (score: 0.230)
* ENSCAFP00000017619 (score: 0.227)
|
From Inparanoid:20070104
|-
|
''Ciona intestinalis'' 
|
* ENSCINP00000006132 (score: 1.000; bootstrap: 100%)
* ENSCINP00000011627 (score: 1.000; bootstrap: 100%)
* ENSCINP00000010059 (score: 0.238)
* ENSCINP00000014206 (score: 0.085)
|
From Inparanoid:20070104
|-
|
''Danio rerio'' 
|
* ZDB-GENE-040907-1 (score: 1.000; bootstrap: 100%)
* ZDB-CDNA-050522-313 (score: 1.000; bootstrap: 100%)
* ZDB-GENE-040824-3 (score: 0.250)
* ZDB-CDNA-050306-29 (score: 0.243)
* ZDB-GENE-050306-29 (score: 0.243)
* ZDB-CDNA-040425-3129 (score: 0.141)
* ZDB-CDNA-040425-743 (score: 0.060)
* ZDB-GENE-020809-3 (score: 0.060)
|
From Inparanoid:20070104
|-
|
''Dictyostelium discoideum'' 
|
* DDB0232233 (score: 1.000; bootstrap: 100%)
* DDB0232229 (score: 0.262)
* DDB0232231 (score: 0.197)
* DDB0232232 (score: 0.058)
|
From Inparanoid:20070104
|-
|
''Drosophila melanogaster'' 
|
* FBgn0030871 (score: 1.000; bootstrap: 100%)
* FBgn0032244 (score: 0.218)
* FBgn0015287 (score: 0.179)
* FBgn0028700 (score: 0.059)
|
From Inparanoid:20070104
|-
|
''Drosophila pseudoobscura'' 
|
* GA20846-PA (score: 1.000; bootstrap: 100%)
* GA13416-PA (score: 0.198)
* GA19473-PA (score: 0.053)
|
From Inparanoid:20070104
|-
|
''Gallus gallus'' 
|
* ENSGALP00000014146 (score: 1.000; bootstrap: 100%)
* ENSGALP00000001978 (score: 0.221)
* ENSGALP00000027512 (score: 0.089)
|
From Inparanoid:20070104
|-
|
''Homo sapiens'' 
|
* ENSP00000229043 (score: 1.000; bootstrap: 100%)
* ENSP00000296273 (score: 0.236)
* ENSP00000055077 (score: 0.234)
|
From Inparanoid:20070104
|-
|
''Macaca mulatta'' 
|
* ENSMMUP00000013401 (score: 1.000; bootstrap: 100%)
* ENSMMUP00000005124 (score: 0.237)
* ENSMMUP00000004943 (score: 0.200)
|
From Inparanoid:20070104
|-
|
''Monodelphis domestica'' 
|
* ENSMODP00000019178 (score: 1.000; bootstrap: 100%)
* ENSMODP00000026610 (score: 0.256)
* ENSMODP00000023216 (score: 0.137)
* ENSMODP00000012200 (score: 0.056)
|
From Inparanoid:20070104
|-
|
''Mus musculus'' 
|
* MGI:1919401 (score: 1.000; bootstrap: 100%)
* MGI:2146571 (score: 0.222)
* MGI:1341868 (score: 0.220)
|
From Inparanoid:20070104
|-
|
''Oryza gramene'' 
|
* Q6YZ54 (score: 1.000; bootstrap: 100%)
* Q9FXT5 (score: 0.989)
* Q9FXM3 (score: 0.200)
* Q7XRX1 (score: 0.197)
* Q948P2 (score: 0.197)
* Q84N07 (score: 0.064)
* Q852K3 (score: 0.063)
|
From Inparanoid:20070104
|-
|
''Pan troglodytes'' 
|
* ENSPTRP00000027044 (score: 1.000; bootstrap: 100%)
* ENSPTRP00000032987 (score: 0.137)
* ENSPTRP00000009832 (score: 0.079)
|
From Inparanoid:20070104
|-
|
''Rattus norvegicus'' 
|
* ENSRNOP00000001498 (score: 1.000; bootstrap: 100%)
* ENSRNOP00000048060 (score: 0.718)
* ENSRNOP00000002487 (score: 0.230)
* ENSRNOP00000001989 (score: 0.216)
|
From Inparanoid:20070104
|-
|
''Saccharomyces cerevisiae'' 
|
* YJR068W (score: 1.000; bootstrap: 100%)
* YNL290W (score: 0.185)
* YOL094C (score: 0.167)
* YBR087W (score: 0.066)
|
From Inparanoid:20070104
|-
|
''Schizosaccharomyces pombe'' 
|
* SPAC27E20c (score: 1.000; bootstrap: 100%)
* SPAC23D32 (score: 0.213)
* SPAC16873c (score: 0.186)
|
From Inparanoid:20070104
|-
|
''Takifugu rubripes'' 
|
* NEWSINFRUP00000164364 (score: 1.000; bootstrap: 100%)
* NEWSINFRUP00000156214 (score: 0.252)
* NEWSINFRUP00000128611 (score: 0.241)
* NEWSINFRUP00000170318 (score: 0.064)
|
From Inparanoid:20070104
|-
|
''Tetraodon nigroviridis'' 
|
* GSTENP00029055001 (score: 1.000; bootstrap: 100%)
* GSTENP00027867001 (score: 0.235)
* GSTENP00019812001 (score: 0.235)
* GSTENP00018858001 (score: 0.060)
|
From Inparanoid:20070104
|-
|
''Xenopus tropicalis'' 
|
* ENSXETP00000002222 (score: 1.000; bootstrap: 63%)
|
From Inparanoid:20070104
 
|- class="tableEdit_footer"
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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=&idtype=all&start=on&species=All&conf=0.05 InParanoid]
*[http://inparanoid.sbc.su.se/cgi-bin/gene_search.cgi?id=&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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|- {{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/PF00004 PF00004  ATPase family associated with various cellular activities (AAA)]
|
|-
|
[http://supfam.cs.bris.ac.uk/SUPERFAMILY/ Superfamily] ([[Superfamily|EcoliWiki Page]])
|
[http://supfam.cs.bris.ac.uk/SUPERFAMILY/cgi-bin/genome.cgi?sf=48019 SUPERFAMILY:48019]
|
|-
|
[http://supfam.cs.bris.ac.uk/SUPERFAMILY/ Superfamily] ([[Superfamily|EcoliWiki Page]])
|
[http://supfam.cs.bris.ac.uk/SUPERFAMILY/cgi-bin/genome.cgi?sf=52540 SUPERFAMILY:52540]
|
|-
|
[http://pfam.janelia.org/ Pfam] ([[Pfam|EcoliWiki Page]])
|
[http://pfam.janelia.org/family/PF12168 PF12168  DNA polymerase III subunits tau domain IV DnaB-binding]
|
|-
|
[http://pfam.janelia.org/ Pfam] ([[Pfam|EcoliWiki Page]])
|
[http://pfam.janelia.org/family/PF12169 PF12169  DNA polymerase III subunits gamma and tau domain III]
|
|
[http://www.sanger.ac.uk/Software/Pfam/ PFAM] ([[PFAM|EcoliWiki Page]])
|-
|
|
[http://www.sanger.ac.uk/cgi-bin/Pfam/getacc?PF00004 PFAM:PF00004]
[http://pfam.janelia.org/ Pfam] ([[Pfam|EcoliWiki Page]])
|
[http://pfam.janelia.org/family/PF12170 PF12170  DNA polymerase III tau subunit V interacting with alpha]
|
|
   
   
|-class='sortbottom'
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|
[[EcoCyc]]
|
EcoCyc:EG10245
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[EcoGene]]
|
EcoGene:EG10245
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[RegulonDB]]
|
RegulonDB:ECK120000239
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[EchoBASE]]
|
EchoBASE:EB0241
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[ASAP]]
|
ASAP:ABE-0001633
|
''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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|- {{table_heading_style}}
!|Name!!URL!!Comments
 
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==References==
==References==
{{BacktoTop}}
{{RefHelp}}
{{RefHelp}}
<references/>
<references />
<noinclude>
__NOTOC__
__NOTOC__
[[Category:Genes with homologs in Shigella flexneri ]][[Category:Genes with homologs in E. coli O157]]</noinclude>
===Categories===
{{BacktoTop}}
[[Category:Genes with homologs in Shigella flexneri ]]
[[Category:Genes with homologs in E. coli O157]]

Latest revision as of 08:30, 27 May 2013

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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

Shigella flexneri

DNAX

From SHIGELLACYC

E. coli O157

DNAX

From ECOO157CYC

Anopheles gambiae

  • ENSANGP00000009446 (score: 1.000; bootstrap: 100%)
  • ENSANGP00000009970 (score: 0.227)
  • ENSANGP00000020452 (score: 0.200)
  • ENSANGP00000019592 (score: 0.060)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000020376 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT4G24790 (score: 1.000; bootstrap: 99%)
  • AT1G14460 (score: 0.150)
  • AT2G02480 (score: 0.145)
  • AT5G45720 (score: 0.116)
  • AT4G18820 (score: 0.108)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000029589 (score: 1.000; bootstrap: 100%)
  • ENSBTAP00000019600 (score: 0.242)
  • ENSBTAP00000024740 (score: 0.220)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00041450 (score: 1.000; bootstrap: 100%)
  • WBGene00041400 (score: 0.204)
  • WBGene00042646 (score: 0.163)
  • WBGene00036412 (score: 0.163)
  • WBGene00025012 (score: 0.056)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00018409 (score: 1.000; bootstrap: 100%)
  • WBGene00004340 (score: 0.184)
  • WBGene00004338 (score: 0.182)
  • WBGene00004339 (score: 0.062)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000014551 (score: 1.000; bootstrap: 100%)
  • ENSCAFP00000020162 (score: 0.230)
  • ENSCAFP00000017619 (score: 0.227)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000006132 (score: 1.000; bootstrap: 100%)
  • ENSCINP00000011627 (score: 1.000; bootstrap: 100%)
  • ENSCINP00000010059 (score: 0.238)
  • ENSCINP00000014206 (score: 0.085)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-040907-1 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-050522-313 (score: 1.000; bootstrap: 100%)
  • ZDB-GENE-040824-3 (score: 0.250)
  • ZDB-CDNA-050306-29 (score: 0.243)
  • ZDB-GENE-050306-29 (score: 0.243)
  • ZDB-CDNA-040425-3129 (score: 0.141)
  • ZDB-CDNA-040425-743 (score: 0.060)
  • ZDB-GENE-020809-3 (score: 0.060)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0232233 (score: 1.000; bootstrap: 100%)
  • DDB0232229 (score: 0.262)
  • DDB0232231 (score: 0.197)
  • DDB0232232 (score: 0.058)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0030871 (score: 1.000; bootstrap: 100%)
  • FBgn0032244 (score: 0.218)
  • FBgn0015287 (score: 0.179)
  • FBgn0028700 (score: 0.059)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA20846-PA (score: 1.000; bootstrap: 100%)
  • GA13416-PA (score: 0.198)
  • GA19473-PA (score: 0.053)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000014146 (score: 1.000; bootstrap: 100%)
  • ENSGALP00000001978 (score: 0.221)
  • ENSGALP00000027512 (score: 0.089)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000229043 (score: 1.000; bootstrap: 100%)
  • ENSP00000296273 (score: 0.236)
  • ENSP00000055077 (score: 0.234)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000013401 (score: 1.000; bootstrap: 100%)
  • ENSMMUP00000005124 (score: 0.237)
  • ENSMMUP00000004943 (score: 0.200)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000019178 (score: 1.000; bootstrap: 100%)
  • ENSMODP00000026610 (score: 0.256)
  • ENSMODP00000023216 (score: 0.137)
  • ENSMODP00000012200 (score: 0.056)

From Inparanoid:20070104

Mus musculus

  • MGI:1919401 (score: 1.000; bootstrap: 100%)
  • MGI:2146571 (score: 0.222)
  • MGI:1341868 (score: 0.220)

From Inparanoid:20070104

Oryza gramene

  • Q6YZ54 (score: 1.000; bootstrap: 100%)
  • Q9FXT5 (score: 0.989)
  • Q9FXM3 (score: 0.200)
  • Q7XRX1 (score: 0.197)
  • Q948P2 (score: 0.197)
  • Q84N07 (score: 0.064)
  • Q852K3 (score: 0.063)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000027044 (score: 1.000; bootstrap: 100%)
  • ENSPTRP00000032987 (score: 0.137)
  • ENSPTRP00000009832 (score: 0.079)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000001498 (score: 1.000; bootstrap: 100%)
  • ENSRNOP00000048060 (score: 0.718)
  • ENSRNOP00000002487 (score: 0.230)
  • ENSRNOP00000001989 (score: 0.216)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YJR068W (score: 1.000; bootstrap: 100%)
  • YNL290W (score: 0.185)
  • YOL094C (score: 0.167)
  • YBR087W (score: 0.066)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPAC27E20c (score: 1.000; bootstrap: 100%)
  • SPAC23D32 (score: 0.213)
  • SPAC16873c (score: 0.186)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000164364 (score: 1.000; bootstrap: 100%)
  • NEWSINFRUP00000156214 (score: 0.252)
  • NEWSINFRUP00000128611 (score: 0.241)
  • NEWSINFRUP00000170318 (score: 0.064)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00029055001 (score: 1.000; bootstrap: 100%)
  • GSTENP00027867001 (score: 0.235)
  • GSTENP00019812001 (score: 0.235)
  • GSTENP00018858001 (score: 0.060)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000002222 (score: 1.000; bootstrap: 63%)

From Inparanoid:20070104

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Notes

Families

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

Database Accession Notes

Pfam (EcoliWiki Page)

PF00004 ATPase family associated with various cellular activities (AAA)

Superfamily (EcoliWiki Page)

SUPERFAMILY:48019

Superfamily (EcoliWiki Page)

SUPERFAMILY:52540

Pfam (EcoliWiki Page)

PF12168 DNA polymerase III subunits tau domain IV DnaB-binding

Pfam (EcoliWiki Page)

PF12169 DNA polymerase III subunits gamma and tau domain III

Pfam (EcoliWiki Page)

PF12170 DNA polymerase III tau subunit V interacting with alpha

EcoCyc

EcoCyc:EG10245

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10245

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000239

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0241

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001633

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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