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<noinclude>{{TabsTop}}  
<noinclude>{{TabsTop}}  
{{Tab|Quickview|fmt}}{{Tab On|Gene|fmt}}{{Tab|Gene Product(s)|fmt}}{{Tab|Expression|fmt}}{{Tab|Evolution|fmt}}{{Tab|On One Page|fmt}}{{TabsBottom}}
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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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==Nomenclature==
==Nomenclature==
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|-
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!{{table_heading_style}} |Standard name
!align=left {{table_heading_style}} |Standard name
|
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''fmt''  
''fmt''
|-
|-
!{{table_heading_style}} |Mnemonic
!align=left {{table_heading_style}} |Mnemonic
|
||
 
fMet-tRNA formyltransferase
|-
|-
!{{table_heading_style}} |Synonyms
!align=left {{table_heading_style}} |Synonyms
|
||
''ECK3274, b3288, JW3249, yhdD, ftm''<ref name='LIB:Riley_2006'/>
''ECK3274, b3288, JW3249, yhdD, ftm''<ref name='LIB:Riley_2006'/>
|-
 
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<!--Nomenclature_notes--></protect>
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===Notes===
===Notes===
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==Location(s) and DNA Sequence==
==Location(s) and DNA Sequence==
{{BacktoTop}}
<protect>
<protect>
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="V46a9f22566920"  class=" tableEdit Gene_location_table" 
|- {{table_heading_style}}
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!Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
|-
|-  
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MG1655
MG1655
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73.98 minutes&nbsp;
73.98 minutes&nbsp;
|
|
MG1655: 3432236..3433183<br />{{GBrowseFigureByCoord|3431236|3434183|ecoli|MG1655}}
MG1655: 3432236..3433183<br /><gbrowseImage>
name=NC_000913:3432236..3433183
source=MG1655
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG11268 EcoCyc]
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG11268 EcoCyc]
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli/?q=MG1655:3431236..3434183 GBrowse(MG1655)]
{{GBrowseLink|MG1655|NC_000913|3431236|3434183|GBrowse(MG1655)}}
   
   
|
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*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli/?plugin=FastaDumper&name=MG1655:3432236..3433183&plugin_action=Go FASTA Dump]
{{GBrowseFastaLink|MG1655|NC_000913|3432236|3433183|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG11268 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=EG11268 EcoCyc Sequence Dump]  
|-
|-
|
[[REL606]]
|
 
|
NC_012967: 3362119..3363066<br /><gbrowseImage>
name=NC_012967:3362119..3363066
source=REL606
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|REL606|NC_012967|3362119|3363066|GBrowse (REL606)}}
|
{{GBrowseFastaLink|REL606|NC_012967|3362119|3363066|FASTA Dump}}
|-
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[[BW2952]]
|
 
|
NC_012759: 3319393..3320340<br /><gbrowseImage>
name=NC_012759:3319393..3320340
source=BW2952
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|BW2952|NC_012759|3319393|3320340|GBrowse (BW2952)}}
|
{{GBrowseFastaLink|BW2952|NC_012759|3319393|3320340|FASTA Dump}}
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W3110
W3110
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&nbsp;
&nbsp;
|
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W3110: 4206202..4205255<br />{{GBrowseFigureByCoord|4204255|4207202|ecoli_W3110|W3110}}  
W3110: 4206202..4205255<br /><gbrowseImage>
name=NC_007779:4205255..4206202
source=W3110
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|W3110|NC_007779|4204255|4207202|GBrowse(W3110)}}
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{{GBrowseFastaLink|W3110|NC_007779|4205255|4206202|FASTA Dump}}  
|-
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[[DH10B]]
|
 
|
DH10B: 3529981..3530928<br /><gbrowseImage>
name=NC_010473:3529981..3530928
source=DH10B
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli_W3110/?q=W3110:4204255..4207202 GBrowse(W3110)]
{{GBrowseLink|DH10B|NC_010473|3528087|3532822|GBrowse(DH10B)}}
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli_W3110/?plugin=FastaDumper&name=W3110:4205255..4206202&plugin_action=Go FASTA Dump]
{{GBrowseFastaLink|DH10B|NC_010473|3528087|3532822|FASTA Dump}}
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===Notes===
===Notes===
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==Sequence Features==
==Sequence Features==
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="K46a9f226268a8"  class=" tableEdit Gene_sequence_features_table" 
|- {{table_heading_style}}
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!Feature type!!Location!!Description
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
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Coding Start (SO:0000323)
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[[MG1655]]
|
3432239
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Edman degradation
|
PMID:1624424<br />
|
 
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<protect><!--Sequence_notes--></protect>
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====Notes====
====Notes====
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==Alleles and Phenotypes==
==Alleles and Phenotypes==
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="H46a9f2266ecfd"  class=" tableEdit Gene_allele_table dataTable" 
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!Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!CGSC Mutation ID #
!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
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<protect><!--Alleles_notes--></protect>
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===Notes===
===Notes===


==Genetic Interactions==
{{BacktoTop}}
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="A4e04bb4fb62a3"  class=" tableEdit Genetic_interaction_table dataTable" 
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!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
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<!-- Genetic Interacdtions Notes -->
===Notes===


==Genetic Resources==
==Genetic Resources==
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!Resource!!Resource Type!!Source!!Notes/Reference
!|Resource!!Resource Type!!Source!!Notes/Reference
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JW3249
|
Plasmid clone
|
[http://www.shigen.nig.ac.jp/ecoli/strain/askaCloneQueryAction.do?strainTypeId=9 Shigen]
|
PMID:16769691
 
Status:Clone OK
 
Primer 1:GCCTCAGAATCACTACGTATTAT
 
Primer 2:CCGACCAGACGGTTGCCCGGAAC
|-
|
[[smg:Gene|smg-3082::Tn10]]
|
Linked marker
|
CAG12071 = [http://cgsc2.biology.yale.edu/Strain.php?ID=40240 CGSC7444]<ref name='LIB:cgsc'/>
|
est. P1 cotransduction: 89% <ref name='LIB:Nichols_linked_Tn'/> <br />
Synonyms:zhb-3082::Tn10, zhd-3082::Tn10
|-
|
[[yhfT:Gene|zhf-3084::Tn10]]
|
Linked marker
|
CAG18456 = [http://cgsc2.biology.yale.edu/Strain.php?ID=61450 CGSC7576]<ref name='LIB:cgsc'/>
|
est. P1 cotransduction: 1% <ref name='LIB:Nichols_linked_Tn'/> <br />
Synonyms:zhe-3084::Tn10nnnCAG18456 also carries cysG0 (CGSC).
 
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===Notes===
===Notes===
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==Accessions in Other Databases==
==Accessions in Other Databases==
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|- {{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=EG11268 EcoCyc:EG11268] 
EcoCyc:EG11268
|
|
''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=EB1247 EchoBASE:EB1247] 
EcoGene:EG11268
|
|
''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=b3288 EcoliGenExpDB:b3288] 
RegulonDB:ECK120001242
|
|
''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=C4048 ECOL199310CYC:C4048]
[http://www.ncbi.nlm.nih.gov/gene?term=947779 GeneID:947779]
|
|
Escherichia coli str. K-12 substr. MG1655
|-
|-  
|
|
[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[EchoBASE]]
|
|
[http://ecogene.org/geneinfo.php?eg_id=EG11268 EcoGene:EG11268] 
EchoBASE:EB1247
|
|
''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=FMT ECOO157CYC:FMT] 
ASAP:ABE-0010781
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
|-
 
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[http://cgsc.biology.yale.edu CGSC] ([[CGSC|EcoliWiki Page]])
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.17123.S46a9f227cad2d&page=17123&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table]</span> || ||
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[http://cgsc.biology.yale.edu/cgi-bin/sybgw/cgsc/Site/33616 CGSC:33616] 
|
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===Notes===
===Notes===
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==Links==
==Links==
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<noinclude><protect>
<noinclude><protect>
==References==
==References==
{{BacktoTop}}
{{RefHelp}}
{{RefHelp}}
<references/>
<references />
__NOTOC__
__NOTOC__
</protect></noinclude>
===Categories===
[[Category:Gene List:MG1655]]
[[Category:Gene List:W3110]]
[[Category:Genes not in the Keio knockout collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:fmt genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:Gene_List:BW2952]]

Latest revision as of 20:46, 19 September 2013

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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

fmt

Mnemonic

fMet-tRNA formyltransferase

Synonyms

ECK3274, b3288, JW3249, yhdD, ftm[1]

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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

73.98 minutes 

MG1655: 3432236..3433183
<gbrowseImage> name=NC_000913:3432236..3433183 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3362119..3363066
<gbrowseImage> name=NC_012967:3362119..3363066 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3319393..3320340
<gbrowseImage> name=NC_012759:3319393..3320340 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 4206202..4205255
<gbrowseImage> name=NC_007779:4205255..4206202 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3529981..3530928
<gbrowseImage> name=NC_010473:3529981..3530928 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

3432239

Edman degradation

PMID:1624424[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
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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

JW3249

Plasmid clone

Shigen

PMID:16769691[3]

Status:Clone OK

Primer 1:GCCTCAGAATCACTACGTATTAT

Primer 2:CCGACCAGACGGTTGCCCGGAAC

smg-3082::Tn10

Linked marker

CAG12071 = CGSC7444[4]

est. P1 cotransduction: 89% [5]
Synonyms:zhb-3082::Tn10, zhd-3082::Tn10

zhf-3084::Tn10

Linked marker

CAG18456 = CGSC7576[4]

est. P1 cotransduction: 1% [5]
Synonyms:zhe-3084::Tn10nnnCAG18456 also carries cysG0 (CGSC).

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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:EG11268

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11268

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001242

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947779

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1247

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010781

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.

  1. ↑ Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ Guillon, JM et al. (1992) Disruption of the gene for Met-tRNA(fMet) formyltransferase severely impairs growth of Escherichia coli. J. Bacteriol. 174 4294-301 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 CGSC: The Coli Genetics Stock Center
  5. ↑ 5.0 5.1 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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