trmD:Gene: Difference between revisions

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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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{|{{Prettytable}}
{|   id="U46a9e20d4c3a0"  class=" tableEdit Gene_nomenclature_table" 
 
|-
!align=left {{table_heading_style}} |Standard name
||
''trmD''
|-
|-
!{{table_heading_style}} |Standard name
!align=left {{table_heading_style}} |Mnemonic
|
||
''trmD''
tRNA methyltransferase
|-
|-
!{{table_heading_style}} |Mnemonic
!align=left {{table_heading_style}} |Synonyms
|
||
''ECK2604, b2607, JW2588''<ref name='LIB:Riley_2006'/>, JW2588''


|-
|- class="tableEdit_footer"
!{{table_heading_style}} |Synonyms
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.15783.U46a9e20d4c3a0&page=15783&pagename={{FULLPAGENAMEE}}&type=1&template=Gene_nomenclature_table edit table]</span> ||
|
''ECK2604, b2607, JW2588''<ref name='LIB:Riley_2006'/>
|-
|colspan='2'|[{{SERVER}}{{SCRIPTPATH}}/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.15783.U46a9e20d4c3a0&page=15783&pagename={{FULLPAGENAMEE}} edit table]
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<!--Nomenclature_notes--></protect>
<!--Nomenclature_notes--></protect>
===Notes===
===Notes===
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{|class = 'sortable' {{Prettytable}} id='140545'
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="S46a9e20dcad31"  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
|-
|-  
|
|
MG1655
MG1655
Line 72: Line 76:
59.11 minutes, 59.11 minutes&nbsp;
59.11 minutes, 59.11 minutes&nbsp;
|
|
MG1655: 2743361..2742594<br />{{GBrowseFigureByCoord|2741594|2744361|ecoli|MG1655}}
MG1655: 2743361..2742594<br /><gbrowseImage>
name=NC_000913:2742594..2743361
source=MG1655
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG11023 EcoCyc]
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG11023 EcoCyc]
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli/?q=MG1655:2741594..2744361 GBrowse(MG1655)]
{{GBrowseLink|MG1655|NC_000913|2741594|2744361|GBrowse(MG1655)}}
   
   
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli/?plugin=FastaDumper&name=MG1655:2742594..2743361&plugin_action=Go FASTA Dump]
{{GBrowseFastaLink|MG1655|NC_000913|2742594|2743361|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG11023 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=EG11023 EcoCyc Sequence Dump]  
|-
|-
|
[[REL606]]
|
 
|
NC_012967: 2666746..2665979<br /><gbrowseImage>
name=NC_012967:2665979..2666746
source=REL606
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|REL606|NC_012967|2665979|2666746|GBrowse (REL606)}}
|
{{GBrowseFastaLink|REL606|NC_012967|2665979|2666746|FASTA Dump}}
|-
|
[[BW2952]]
|
 
|
NC_012759: 2628406..2629173<br /><gbrowseImage>
name=NC_012759:2628406..2629173
source=BW2952
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|BW2952|NC_012759|2628406|2629173|GBrowse (BW2952)}}
|
{{GBrowseFastaLink|BW2952|NC_012759|2628406|2629173|FASTA Dump}}
|-  
|
|
W3110
W3110
Line 86: Line 127:
&nbsp;
&nbsp;
|
|
W3110: 2743995..2743228<br />{{GBrowseFigureByCoord|2742228|2744995|ecoli_W3110|W3110}}
W3110: 2743995..2743228<br /><gbrowseImage>
name=NC_007779:2743228..2743995
source=W3110
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli_W3110/?q=W3110:2742228..2744995 GBrowse(W3110)]
{{GBrowseLink|W3110|NC_007779|2742228|2744995|GBrowse(W3110)}}
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli_W3110/?plugin=FastaDumper&name=W3110:2743228..2743995&plugin_action=Go FASTA Dump]
{{GBrowseFastaLink|W3110|NC_007779|2743228|2743995|FASTA Dump}}
|-class='sortbottom'
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|
[[DH10B]]
|
 
|
DH10B: 2835126..2834359<br /><gbrowseImage>
name=NC_010473:2834359..2835126
source=DH10B
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|DH10B|NC_010473|2832825|2836660|GBrowse(DH10B)}}
|
{{GBrowseFastaLink|DH10B|NC_010473|2832825|2836660|FASTA Dump}}
 
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.15783.S46a9e20dcad31&page=15783&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_location_table edit table]</span> || || || ||
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<!--Location_notes--></protect>
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===Notes===
===Notes===
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{|class = 'sortable' {{Prettytable}} id='140546'
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|- {{table_heading_style}}
|- {{table_heading_style}}
!Feature type!!Location!!Description
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
|-class='sortbottom'
|-
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|
Coding Start (SO:0000323)
|
[[MG1655]]
|
2742594
|
Edman degradation
|
PMID:6337136<br />
|
 
|- class="tableEdit_footer"
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<protect><!--Sequence_notes--></protect>
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====Notes====
====Notes====
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{|class = 'sortable' {{Prettytable}} id='140547'
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="R46a9e20ed80c6"  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
|-class='sortbottom'
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|[{{SERVER}}{{SCRIPTPATH}}/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.15783.R46a9e20ed80c6&page=15783&pagename={{FULLPAGENAMEE}} edit table] || || || || || || ||
|
trmDD169A
|
 
|
D169A
|
 
|
Loss of activity
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDL197A
|
 
|
L197A
|
 
|
Loss of activity; no effect on tRNA binding
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDF171A
|
 
|
F171A
|
 
|
Loss of activity
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDP184A
|
 
|
P184A
|
 
|
Loss of activity; no effect on tRNA binding
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDG59A
|
 
|
G59A
|
 
|
Loss of activity
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDG91A
|
 
|
G91A
|
 
|
Loss of activity; no effect on tRNA binding
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDR114A
|
 
|
R114A
|
 
|
Loss of activity
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDY115A
|
 
|
Y115A
|
 
|
Increases Km for S-adenosyl-L- methionine 24-fold
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDG117A
|
 
|
G117A
|
 
|
Loss of activity
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDD119A
|
 
|
D119A
|
 
|
Loss of activity
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDR121A
|
 
|
R121A
|
 
|
Loss of activity; no effect on tRNA binding
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDL196A
|
 
|
L196A
|
 
|
Loss of activity; no effect on tRNA binding
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDV192A
|
 
|
V192A
|
 
|
Loss of activity; no effect on tRNA binding
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDG141A
|
 
|
G141A
|
 
|
Increases Km for S-adenosyl-L- methionine 82-fold
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDR154A
|
 
|
R154A
|
 
|
Loss of activity; no effect on tRNA binding
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDD135A
|
 
|
D135A
|
 
|
Loss of activity; no effect on tRNA binding
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDY136A
|
 
|
Y136A
|
 
|
Increases Km for S-adenosyl-L- methionine 68-fold
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDP193A
|
 
|
P193A
|
 
|
Loss of activity; no effect on tRNA binding
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDD128A
|
 
|
D128A
|
 
|
Loss of activity
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDW207A
|
 
|
W207A
|
 
|
Loss of activity; no effect on tRNA binding
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDW207F,H
|
 
|
W207F,H
|
 
|
Small decrease in activity
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDR208A
|
 
|
R208A
|
 
|
Loss of activity; no effect on tRNA binding
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
|-
|
trmDI204A
|
 
|
I204A
|
 
|
Loss of activity; no effect on tRNA binding
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0A873 UniProt:P0A873]
 
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.15783.R46a9e20ed80c6&page=15783&pagename={{FULLPAGENAMEE}}&type=&template=Gene_allele_table edit table]</span> || || || || || || ||
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{{Gene_alleles_help}}
 
<protect><!--Alleles_notes--></protect>
<protect><!--Alleles_notes--></protect>
===Notes===
===Notes===


==Genetic Interactions==
{{BacktoTop}}
<protect><!--box uid=bc145ea147f7e36caf09c1bfeed4ee9d.15783.V4e04c4e60f840-->
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="V4e04c4e60f840"  class=" tableEdit Genetic_interaction_table dataTable" 
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!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
|- class="tableEdit_footer"
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===Notes===


==Genetic Resources==
==Genetic Resources==
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{|class = 'sortable' {{Prettytable}} id='140548'
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="Z46a9e20f923ad"  class=" tableEdit Gene_resource_table" 
|- {{table_heading_style}}
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!Resource!!Resource Type!!Source!!Notes/Reference
!|Resource!!Resource Type!!Source!!Notes/Reference
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JW2588
JW2588
Line 162: Line 653:
[http://www.shigen.nig.ac.jp/ecoli/strain/askaCloneQueryAction.do?strainTypeId=9 Shigen]
[http://www.shigen.nig.ac.jp/ecoli/strain/askaCloneQueryAction.do?strainTypeId=9 Shigen]
|
|
[[PMID:16769691]]<ref name=PMID:16769691/>
PMID:16769691


Status:Clone OK
Status:Clone OK
Line 169: Line 660:


Primer 2:CCgGCCATCCCATCATGTTTATG  
Primer 2:CCgGCCATCCCATCATGTTTATG  
|-
|-
|
[[:Category:Kohara_Phage:E8F2|E8F2]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=438 Genobase]
|
PMID:3038334
|-
|
[[:Category:Kohara_Phage:22D7|22D7]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=439 Genobase]
|
PMID:3038334
|-  
|
|
[[pheA:Gene|pheA18::Tn10]]
[[pheA:Gene|pheA18::Tn10]]
Line 178: Line 687:
|
|
est. P1 cotransduction: 84% <ref name='LIB:Nichols_linked_Tn'/>  
est. P1 cotransduction: 84% <ref name='LIB:Nichols_linked_Tn'/>  
|-
|-  
|
|
[[srlD:Gene|srlD3131::Tn10]]
[[srlD:Gene|srlD3131::Tn10]]
Line 186: Line 695:
CAG18642 = [http://cgsc2.biology.yale.edu/Strain.php?ID=40097 CGSC7423]<ref name='LIB:cgsc'/>
CAG18642 = [http://cgsc2.biology.yale.edu/Strain.php?ID=40097 CGSC7423]<ref name='LIB:cgsc'/>
|
|
est. P1 cotransduction: % <ref name='LIB:Nichols_linked_Tn'/>
est. P1 cotransduction: % <ref name='LIB:Nichols_linked_Tn'/> <br />
Synonyms:zfh-3131::Tn10, zfi-3131::Tn10


Synonyms:zfh-3131::Tn10, zfi-3131::Tn10
|- class="tableEdit_footer"
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|[{{SERVER}}{{SCRIPTPATH}}/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.15783.Z46a9e20f923ad&page=15783&pagename={{FULLPAGENAMEE}} edit table] || || ||
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===Notes===
===Notes===
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*  ** 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. **  
*  
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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="B46a9e21034e78"  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=EG11023 EcoCyc:EG11023]
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[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
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[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB1016 EchoBASE:EB1016]
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|-
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[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])
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[http://chase.ou.edu/macro/searchlink.php?bnum=b2607 EcoliGenExpDB:b2607]
EcoCyc:EG11023
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://BioCyc.org/ECOL199310/ ECOL199310CYC] ([[ECOL199310CYC|EcoliWiki Page]])
[[EcoGene]]
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[http://BioCyc.org/ECOL199310/new-image?object=C3128 ECOL199310CYC:C3128]
EcoGene:EG11023
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[RegulonDB]]
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[http://ecogene.org/geneinfo.php?eg_id=EG11023 EcoGene:EG11023]
RegulonDB:ECK120001012
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
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[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI] ([[NCBI|EcoliWiki Page]])
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[http://BioCyc.org/ECOO157/new-image?object=TRMD ECOO157CYC:TRMD]
[http://www.ncbi.nlm.nih.gov/gene?term=947099 GeneID:947099]
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Escherichia coli str. K-12 substr. MG1655
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[http://cgsc.biology.yale.edu CGSC] ([[CGSC|EcoliWiki Page]])
[[EchoBASE]]
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[http://cgsc.biology.yale.edu/cgi-bin/sybgw/cgsc/Site/76 CGSC:76]
EchoBASE:EB1016
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[https://asap.ahabs.wisc.edu/asap/logon.php ASAP] ([[ASAP|EcoliWikiPage]])
[[ASAP]]
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[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0008576&formSubmitReturn=1 ASAP:ABE-0008576] 
ASAP:ABE-0008576
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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===Categories===
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[[Category:Gene List:MG1655]]
[[Category:Gene List:MG1655]]
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[[Category:Genes not in the Keio knockout collection]]
[[Category:Genes not in the Keio knockout collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:trm genes]]
[[Category:trm genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:Gene_List:BW2952]]

Latest revision as of 20:43, 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

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

Standard name

trmD

Mnemonic

tRNA methyltransferase

Synonyms

ECK2604, b2607, JW2588[1], JW2588

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Notes

Location(s) and DNA Sequence

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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

59.11 minutes, 59.11 minutes 

MG1655: 2743361..2742594
<gbrowseImage> name=NC_000913:2742594..2743361 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2666746..2665979
<gbrowseImage> name=NC_012967:2665979..2666746 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2628406..2629173
<gbrowseImage> name=NC_012759:2628406..2629173 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2743995..2743228
<gbrowseImage> name=NC_007779:2743228..2743995 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2835126..2834359
<gbrowseImage> name=NC_010473:2834359..2835126 source=DH10B preset=GeneLocation </gbrowseImage>

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Notes

Sequence Features

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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

2742594

Edman degradation

PMID:6337136[2]


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Notes

Alleles and Phenotypes

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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

trmDD169A

D169A

Loss of activity

seeded from UniProt:P0A873

trmDL197A

L197A

Loss of activity; no effect on tRNA binding

seeded from UniProt:P0A873

trmDF171A

F171A

Loss of activity

seeded from UniProt:P0A873

trmDP184A

P184A

Loss of activity; no effect on tRNA binding

seeded from UniProt:P0A873

trmDG59A

G59A

Loss of activity

seeded from UniProt:P0A873

trmDG91A

G91A

Loss of activity; no effect on tRNA binding

seeded from UniProt:P0A873

trmDR114A

R114A

Loss of activity

seeded from UniProt:P0A873

trmDY115A

Y115A

Increases Km for S-adenosyl-L- methionine 24-fold

seeded from UniProt:P0A873

trmDG117A

G117A

Loss of activity

seeded from UniProt:P0A873

trmDD119A

D119A

Loss of activity

seeded from UniProt:P0A873

trmDR121A

R121A

Loss of activity; no effect on tRNA binding

seeded from UniProt:P0A873

trmDL196A

L196A

Loss of activity; no effect on tRNA binding

seeded from UniProt:P0A873

trmDV192A

V192A

Loss of activity; no effect on tRNA binding

seeded from UniProt:P0A873

trmDG141A

G141A

Increases Km for S-adenosyl-L- methionine 82-fold

seeded from UniProt:P0A873

trmDR154A

R154A

Loss of activity; no effect on tRNA binding

seeded from UniProt:P0A873

trmDD135A

D135A

Loss of activity; no effect on tRNA binding

seeded from UniProt:P0A873

trmDY136A

Y136A

Increases Km for S-adenosyl-L- methionine 68-fold

seeded from UniProt:P0A873

trmDP193A

P193A

Loss of activity; no effect on tRNA binding

seeded from UniProt:P0A873

trmDD128A

D128A

Loss of activity

seeded from UniProt:P0A873

trmDW207A

W207A

Loss of activity; no effect on tRNA binding

seeded from UniProt:P0A873

trmDW207F,H

W207F,H

Small decrease in activity

seeded from UniProt:P0A873

trmDR208A

R208A

Loss of activity; no effect on tRNA binding

seeded from UniProt:P0A873

trmDI204A

I204A

Loss of activity; no effect on tRNA binding

seeded from UniProt:P0A873

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Notes

Genetic Interactions

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

Genetic Resources

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

Resource Resource Type Source Notes/Reference

JW2588

Plasmid clone

Shigen

PMID:16769691[3]

Status:Clone OK

Primer 1:GCCTGGATTGGCATAATTAGCCT

Primer 2:CCgGCCATCCCATCATGTTTATG

E8F2

Kohara Phage

Genobase

PMID:3038334[4]

22D7

Kohara Phage

Genobase

PMID:3038334[4]

pheA18::Tn10

Linked marker

CAG12158 = CGSC7421[5]

est. P1 cotransduction: 84% [6]

srlD3131::Tn10

Linked marker

CAG18642 = CGSC7423[5]

est. P1 cotransduction: % [6]
Synonyms:zfh-3131::Tn10, zfi-3131::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:EG11023

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11023

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001012

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947099

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1016

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008576

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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<protect>

References

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

  1. ↑ Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ Hjalmarsson, KJ et al. (1983) Purification and characterization of transfer RNA (guanine-1)methyltransferase from Escherichia coli. J. Biol. Chem. 258 1343-51 PubMed
  3. ↑ 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
  4. ↑ 4.0 4.1 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
  5. ↑ 5.0 5.1 CGSC: The Coli Genetics Stock Center
  6. ↑ 6.0 6.1 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).

Categories

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