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|{{Sub}}[[#Nomenclature |Nomenclature]]
|{{Sub}}[[#Nomenclature |Nomenclature]]
|{{Sub}}[[#Location(s) and DNA Sequence|Location(s) and DNA Sequence]]
|{{Sub}}[[#Location(s) and DNA Sequence|Location(s) and DNA Sequence]]
|{{Sub}}[[#Sequence Features|Sequence Features]]
|{{Sub}}[[#Alleles and Phenotypes |Alleles and Phenotypes]]
|{{Sub}}[[#Alleles and Phenotypes |Alleles and Phenotypes]]
|{{Sub}}[[#Genetic Interactions | Genetic Interactions]]
|{{Sub}}[[#Genetic Resources  |Genetic Resources]]
|{{Sub}}[[#Genetic Resources  |Genetic Resources]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
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{|   id="R46a9ca547d687" class=" tableEdit Gene_nomenclature_table"


|-
|-
!align=left {{table_heading_style}} |Standard name
!align=left {{table_heading_style}} |Standard name
||
||
''dmsD''  
''dmsD''
|-
|-
!align=left {{table_heading_style}} |Mnemonic
!align=left {{table_heading_style}} |Mnemonic
||
||
 
DMSO reductase
|-
|-
!align=left {{table_heading_style}} |Synonyms
!align=left {{table_heading_style}} |Synonyms
||
||
''ECK1586, b1591, JW5262, ynfI''<ref name='LIB:Riley_2006'/>
''ECK1586, b1591, JW5262, ynfI''<ref name='LIB:Riley_2006'/>, ynfI''


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*  
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****************************************************************************************** -->{{Gene_location_help}}
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{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="M46a9ca55047c6"  class=" tableEdit Gene_location_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
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35.83 minutes&nbsp;
35.83 minutes&nbsp;
|
|
MG1655: 1662530..1663144<br />{{GBrowseFigureByCoord|1661530|1664144|ecoli|MG1655}}
MG1655: 1662530..1663144<br /><gbrowseImage>
name=NC_000913:1662530..1663144
source=MG1655
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=G6849 EcoCyc]
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=G6849 EcoCyc]
{{GBrowseLink|ecoli|NC_000913|1661530|1664144|GBrowse(MG1655)}}
{{GBrowseLink|MG1655|NC_000913|1661530|1664144|GBrowse(MG1655)}}
   
   
|
|
{{GBrowseFastaLink|ecoli|NC_000913|1662530|1663144|FASTA Dump}}
{{GBrowseFastaLink|MG1655|NC_000913|1662530|1663144|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=G6849 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=G6849 EcoCyc Sequence Dump]  
|-
|
[[BW2952]]
|
|
NC_012759: 1554589..1555203<br /><gbrowseImage>
name=NC_012759:1554589..1555203
source=BW2952
preset=GeneLocation
</gbrowseImage>
|
{{GBrowseLink|BW2952|NC_012759|1554589|1555203|GBrowse (BW2952)}}
|
{{GBrowseFastaLink|BW2952|NC_012759|1554589|1555203|FASTA Dump}}
|-  
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&nbsp;
&nbsp;
|
|
W3110: 1666220..1666834<br />{{GBrowseFigureByCoord|1665220|1667834|ecoli_W3110|W3110}}  
W3110: 1666220..1666834<br /><gbrowseImage>
name=NC_007779:1666220..1666834
source=W3110
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|W3110|NC_007779|1665220|1667834|GBrowse(W3110)}}
|
{{GBrowseFastaLink|W3110|NC_007779|1666220|1666834|FASTA Dump}}  
|-
|
[[DH10B]]
|
|
{{GBrowseLink|ecoli_W3110|AC_000091|1665220|1667834|GBrowse(W3110)}}
 
|
|
{{GBrowseFastaLink|ecoli_W3110|AC_000091|1666220|1666834|FASTA Dump}}
DH10B: 1753491..1754105<br /><gbrowseImage>
name=NC_010473:1753491..1754105
source=DH10B
preset=GeneLocation
</gbrowseImage>


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{{GBrowseLink|DH10B|NC_010473|1752263|1755333|GBrowse(DH10B)}}
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****************************************************************************************** -->{{Gene_sequence_features_help}}
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{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="F46a9ca55a9634"  class=" tableEdit Gene_sequence_features_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Feature type!!Location!!Description
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
|-
|
Coding Start (SO:0000323)
|
[[MG1655]]
|
1662533
|
Edman degradation
|
PMID:11309116<br />
|


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*  
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****************************************************************************************** -->{{Gene_alleles_help}}
****************************************************************************************** -->{{Gene_alleles_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;" {{Prettytable}}
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;" id="K46a9ca55ec2a3"  class=" tableEdit Gene_allele_table dataTable" 
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
|-  
|-  
|
|
&Delta;dmsD (Keio:JW5262)
''dmsD(del) (Keio:JW5262)''
|
|
deletion
deletion
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===Notes===
===Notes===


==Genetic Interactions==
{{BacktoTop}}
<protect><!--box uid=bc145ea147f7e36caf09c1bfeed4ee9d.13747.B4e04b9f188991-->
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<!-- Genetic Interacdtions Notes -->
===Notes===


==Genetic Resources==
==Genetic Resources==
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|- {{table_heading_style}}
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!|Resource!!Resource Type!!Source!!Notes/Reference
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Primer 2:CCTCGAAACAGCGGTTTAACCGC  
Primer 2:CCTCGAAACAGCGGTTTAACCGC  
|-
|
[[:Category:Kohara_Phage:6F6|6F6]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=310 Genobase]
|
PMID:3038334
|-
|
[[:Category:Kohara_Phage:E3F2|E3F2]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=311 Genobase]
|
PMID:3038334
|-  
|-  
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Synonyms:zdh-925::Tn10  
Synonyms:zdh-925::Tn10  


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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="F46a9ca57389e2"  class=" tableEdit Gene_accessions_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-  
|-  
|
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=G6849 EcoCyc:G6849]
EcoCyc:G6849
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
[[EcoGene]]
|
|
[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB3608 EchoBASE:EB3608]
EcoGene:EG13847
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])
[[RegulonDB]]
|
|
[http://chase.ou.edu/macro/searchlink.php?bnum=b1591 EcoliGenExpDB:b1591]
RegulonDB:ECK120003438
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://BioCyc.org/ECOL199310/ ECOL199310CYC] ([[ECOL199310CYC|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI] ([[NCBI|EcoliWiki Page]])
|
|
[http://BioCyc.org/ECOL199310/new-image?object=C1982 ECOL199310CYC:C1982]
[http://www.ncbi.nlm.nih.gov/gene?term=945987 GeneID:945987]
|
|
Escherichia coli str. K-12 substr. MG1655
|-  
|-  
|
|
[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[EchoBASE]]
|
|
[http://ecogene.org/geneinfo.php?eg_id=EG13847 EcoGene:EG13847]
EchoBASE:EB3608
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])
[[ASAP]]
|
|
[http://BioCyc.org/ECOO157/new-image?object=Z2581 ECOO157CYC:Z2581]
ASAP:ABE-0005314
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
|-  
|
[https://asap.ahabs.wisc.edu/asap/logon.php ASAP] ([[ASAP|EcoliWikiPage]])
|
[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0005314&formSubmitReturn=1 ASAP:ABE-0005314]
|


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!|Name!!URL!!Comments


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==References==
==References==
{{BacktoTop}}
{{BacktoTop}}
 
{{RefHelp}}
<references/>
<references />
__NOTOC__
__NOTOC__
</protect></noinclude>
===Categories===
===Categories===
[[Category:Gene List:MG1655]]
[[Category:Gene List:MG1655]]
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[[Category:Genes in the Keio knockout collection]]
[[Category:Genes in the Keio knockout collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:dms genes]][[Category:Gene_List:DH10B]]
[[Category:dms genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:Gene_List:BW2952]]

Latest revision as of 20:28, 19 September 2013

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Nomenclature Location(s) and DNA Sequence Sequence Features Alleles and Phenotypes Genetic Interactions Genetic Resources Accessions Links References Suggestions

Nomenclature

[back to top]


See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

dmsD

Mnemonic

DMSO reductase

Synonyms

ECK1586, b1591, JW5262, ynfI[1], ynfI

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Notes

Location(s) and DNA Sequence

[back to top]


See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

35.83 minutes 

MG1655: 1662530..1663144
<gbrowseImage> name=NC_000913:1662530..1663144 source=MG1655 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1554589..1555203
<gbrowseImage> name=NC_012759:1554589..1555203 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1666220..1666834
<gbrowseImage> name=NC_007779:1666220..1666834 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1753491..1754105
<gbrowseImage> name=NC_010473:1753491..1754105 source=DH10B preset=GeneLocation </gbrowseImage>

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Notes

Sequence Features

[back to top]


See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes

Coding Start (SO:0000323)

MG1655

1662533

Edman degradation

PMID:11309116[2]


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Notes

Alleles and Phenotypes

[back to top]


See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

dmsD(del) (Keio:JW5262)

deletion

deletion

PMID:16738554[3]

Shigen


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Notes

Genetic Interactions

[back to top]



Interactor Interaction Allele Score(s) Reference(s) Accessions Notes
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Notes

Genetic Resources

[back to top]


See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource Resource Type Source Notes/Reference

JW5262

Plasmid clone

Shigen

PMID:16769691[4]

Status:Clone OK

Primer 1:GCCACCCATTTTTCACAGCAAGA

Primer 2:CCTCGAAACAGCGGTTTAACCGC

6F6

Kohara Phage

Genobase

PMID:3038334[5]

E3F2

Kohara Phage

Genobase

PMID:3038334[5]

zdd-235::Tn10

Linked marker

CAG18461 = CGSC7378[6]

est. P1 cotransduction: % [7]
Synonyms:zdc-235::Tn10

zdi-925::Tn10

Linked marker

CAG12151 = CGSC7385[6]

est. P1 cotransduction: % [7]
Synonyms:zdh-925::Tn10

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Notes

Accessions in Other Databases

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

Database Accession Notes

EcoCyc

EcoCyc:G6849

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13847

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003438

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945987

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3608

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0005314

Escherichia coli str. K-12 substr. MG1655

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  1. ↑ Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ Oresnik, IJ et al. (2001) Identification of a twin-arginine leader-binding protein. Mol. Microbiol. 40 323-31 PubMed
  3. ↑ Baba, T et al. (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol. Syst. Biol. 2 2006.0008 PubMed
  4. ↑ Kitagawa, M et al. (2005) Complete set of ORF clones of Escherichia coli ASKA library (a complete set of E. coli K-12 ORF archive): unique resources for biological research. DNA Res. 12 291-9 PubMed
  5. ↑ 5.0 5.1 Kohara, Y et al. (1987) The physical map of the whole E. coli chromosome: application of a new strategy for rapid analysis and sorting of a large genomic library. Cell 50 495-508 PubMed
  6. ↑ 6.0 6.1 CGSC: The Coli Genetics Stock Center
  7. ↑ 7.0 7.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).

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