fabI: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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****************************************************************************************** -->{{Gene_nomenclature_help}}
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{|   id="W46a9c3e225e37" class=" tableEdit Gene_nomenclature_table"


|-
|-
!align=left {{table_heading_style}} |Standard name
!align=left {{table_heading_style}} |Standard name
||
||
''fabI''  
''fabI''
|-
|-
!align=left {{table_heading_style}} |Mnemonic
!align=left {{table_heading_style}} |Mnemonic
||
||
 
Fatty acid biosynthesis
|-
|-
!align=left {{table_heading_style}} |Synonyms
!align=left {{table_heading_style}} |Synonyms
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''ECK1283, b1288, JW1281, envM, gts, qmeA, G482''<ref name='LIB:Riley_2006'/><ref name='LIB:EcoCyc10.6'/>
''ECK1283, b1288, JW1281, envM, gts, qmeA, G482''<ref name='LIB:Riley_2006'/><ref name='LIB:EcoCyc10.6'/>


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*  
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****************************************************************************************** -->{{Gene_location_help}}
****************************************************************************************** -->{{Gene_location_help}}
{|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="R46a9c3e2a030c"  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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29.06 minutes&nbsp;
29.06 minutes&nbsp;
|
|
MG1655: 1349063..1348275<br />{{GBrowseFigureByCoord|1347275|1350063|ecoli|MG1655}}
MG1655: 1349063..1348275<br /><gbrowseImage>
name=NC_000913:1348275..1349063
source=MG1655
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG11528 EcoCyc]
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG11528 EcoCyc]
{{GBrowseLink|ecoli|NC_000913|1347275|1350063|GBrowse(MG1655)}}
{{GBrowseLink|MG1655|NC_000913|1347275|1350063|GBrowse(MG1655)}}
   
   
|
|
{{GBrowseFastaLink|ecoli|NC_000913|1348275|1349063|FASTA Dump}}
{{GBrowseFastaLink|MG1655|NC_000913|1348275|1349063|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG11528 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=EG11528 EcoCyc Sequence Dump]  
|-
|
[[REL606]]
|
|
NC_012967: 1349408..1348620<br /><gbrowseImage>
name=NC_012967:1348620..1349408
source=REL606
preset=GeneLocation
</gbrowseImage>
|
{{GBrowseLink|REL606|NC_012967|1348620|1349408|GBrowse (REL606)}}
|
{{GBrowseFastaLink|REL606|NC_012967|1348620|1349408|FASTA Dump}}
|-
|
[[BW2952]]
|
|
NC_012759: 1239124..1239912<br /><gbrowseImage>
name=NC_012759:1239124..1239912
source=BW2952
preset=GeneLocation
</gbrowseImage>
|
{{GBrowseLink|BW2952|NC_012759|1239124|1239912|GBrowse (BW2952)}}
|
{{GBrowseFastaLink|BW2952|NC_012759|1239124|1239912|FASTA Dump}}
|-  
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&nbsp;
&nbsp;
|
|
W3110: 1352753..1351965<br />{{GBrowseFigureByCoord|1350965|1353753|ecoli_W3110|W3110}}
W3110: 1352753..1351965<br /><gbrowseImage>
name=NC_007779:1351965..1352753
source=W3110
preset=GeneLocation
</gbrowseImage>
 
|
|
{{GBrowseLink|ecoli_W3110|AC_000091|1350965|1353753|GBrowse(W3110)}}  
{{GBrowseLink|W3110|NC_007779|1350965|1353753|GBrowse(W3110)}}  
|
|
{{GBrowseFastaLink|ecoli_W3110|AC_000091|1351965|1352753|FASTA Dump}}  
{{GBrowseFastaLink|W3110|NC_007779|1351965|1352753|FASTA Dump}}  
|-  
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|
|
DH10B: 1438459..1437671<br />{{GBrowseFigureByCoord|1436095|1440035|ecoli_DH10B|DH10B}}
DH10B: 1438459..1437671<br /><gbrowseImage>
name=NC_010473:1437671..1438459
source=DH10B
preset=GeneLocation
</gbrowseImage>
 
|
|
{{GBrowseLink|ecoli_DH10B|NC_010473|1436095|1440035|GBrowse(DH10B)}}
{{GBrowseLink|DH10B|NC_010473|1436095|1440035|GBrowse(DH10B)}}
|
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{{GBrowseFastaLink|ecoli_DH10B|NC_010473|1436095|1440035|FASTA Dump}}  
{{GBrowseFastaLink|DH10B|NC_010473|1436095|1440035|FASTA Dump}}  


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****************************************************************************************** -->{{Gene_sequence_features_help}}
****************************************************************************************** -->{{Gene_sequence_features_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
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|- {{table_heading_style}}
|- {{table_heading_style}}
!|Feature type!!Location!!Description
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
|-
|
Coding Start (SO:0000323)
|
[[MG1655]]
|
1348278
|
Edman degradation
|
PMID:1364817<br />PMID:8119879<br />PMID:9298646<br />
|


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****************************************************************************************** -->{{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="K46a9c3e38f4f6"  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
|-  
|-  
|
|
''fabI392''(ts)
fabIG93S
|
 
|
G93S
|
 
|
Diazaborine resistance
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0AEK4 UniProt:P0AEK4]
|-
|
fabIS241F
|
 
|
S241F
|
|


|
Produces temperature-sensitive phenotype
|
|


|
|


|
seeded from [http://www.uniprot.org/uniprot/P0AEK4 UniProt:P0AEK4]
|-
|
''fabI392''(ts)
|
C to T at position 1125
|
Ser to Phe at position 241
|
Growth Phenotype
|
|
temperature sensitive
temperature sensitive
|
|
PMID:4574419


|
|
[[cgscmutation:7550|CGSC:7550]]
[[cgscmutation:7550|CGSC:7550]]
|
|
originally named ''envM392''
 
sequence of mutation<ref name='PMID:1364817'/>


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===Notes===
===Notes===


==Genetic Interactions==
{{BacktoTop}}
<protect><!--box uid=bc145ea147f7e36caf09c1bfeed4ee9d.13143.U4e04baa82ffa9-->
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<!-- Genetic Interacdtions Notes -->
===Notes===


==Genetic Resources==
==Genetic Resources==
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!|Resource!!Resource Type!!Source!!Notes/Reference
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Primer 2:CCTTTCAGTTCGAGTTCGTTCAT  
Primer 2:CCTTTCAGTTCGAGTTCGTTCAT  
|-
|
[[:Category:Kohara_Phage:18B6|18B6]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=255 Genobase]
|
PMID:3038334
|-
|
[[:Category:Kohara_Phage:E14F6|E14F6]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=256 Genobase]
|
PMID:3038334
|-  
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Synonyms:zci-233::Tn10  
Synonyms:zci-233::Tn10  


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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=EG11528 EcoCyc:EG11528]
EcoCyc:EG11528
|
|
''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=EB1490 EchoBASE:EB1490]
EcoGene:EG11528
|
|
''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=b1288 EcoliGenExpDB:b1288]
RegulonDB:ECK120001482
|
|
''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=C1759 ECOL199310CYC:C1759]
[http://www.ncbi.nlm.nih.gov/gene?term=945870 GeneID:945870]
|
|
Escherichia coli str. K-12 substr. MG1655
|-  
|-  
|
|
[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[EchoBASE]]
|
|
[http://ecogene.org/geneinfo.php?eg_id=EG11528 EcoGene:EG11528]
EchoBASE:EB1490
|
|
''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=FABI ECOO157CYC:FABI]
ASAP:ABE-0004327
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
|-  
|
[http://cgsc.biology.yale.edu CGSC] ([[CGSC|EcoliWiki Page]])
|
[http://cgsc.biology.yale.edu/cgi-bin/sybgw/cgsc/Site/812 CGSC:812]
|
|-
|
[https://asap.ahabs.wisc.edu/asap/logon.php ASAP] ([[ASAP|EcoliWikiPage]])
|
[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0004327&formSubmitReturn=1 ASAP:ABE-0004327]
|


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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:fab genes]][[Category:Gene_List:DH10B]]
[[Category:fab genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:Gene_List:BW2952]]

Latest revision as of 20:30, 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

fabI

Mnemonic

Fatty acid biosynthesis

Synonyms

ECK1283, b1288, JW1281, envM, gts, qmeA, G482[1][2]

edit table


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

29.06 minutes 

MG1655: 1349063..1348275
<gbrowseImage> name=NC_000913:1348275..1349063 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1349408..1348620
<gbrowseImage> name=NC_012967:1348620..1349408 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1239124..1239912
<gbrowseImage> name=NC_012759:1239124..1239912 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1352753..1351965
<gbrowseImage> name=NC_007779:1351965..1352753 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1438459..1437671
<gbrowseImage> name=NC_010473:1437671..1438459 source=DH10B preset=GeneLocation </gbrowseImage>

edit table


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

1348278

Edman degradation

PMID:1364817[3]
PMID:8119879[4]
PMID:9298646[5]


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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

fabIG93S

G93S

Diazaborine resistance

seeded from UniProt:P0AEK4

fabIS241F

S241F

Produces temperature-sensitive phenotype

seeded from UniProt:P0AEK4

fabI392(ts)

C to T at position 1125

Ser to Phe at position 241

Growth Phenotype

temperature sensitive

PMID:4574419[6]

CGSC:7550

originally named envM392

sequence of mutation[3]

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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

JW1281

Plasmid clone

Shigen

PMID:16769691[7]

Status:Clone OK

Primer 1:GCCGGTTTTCTTTCCGGTAAGCG

Primer 2:CCTTTCAGTTCGAGTTCGTTCAT

18B6

Kohara Phage

Genobase

PMID:3038334[8]

E14F6

Kohara Phage

Genobase

PMID:3038334[8]

trpC83::Tn10

Linked marker

CAG18455 = CGSC7371[9]

est. P1 cotransduction: 30% [10]
Synonyms:trpB83::Tn10

zcj-233::Tn10

Linked marker

CAG12028 = CGSC7373[9]

est. P1 cotransduction: 47% [10]
Synonyms:zci-233::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:EG11528

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11528

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001482

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945870

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1490

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004327

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. ↑ EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 Bergler, H et al. (1992) Sequences of the envM gene and of two mutated alleles in Escherichia coli. J. Gen. Microbiol. 138 2093-100 PubMed
  4. ↑ Bergler, H et al. (1994) Protein EnvM is the NADH-dependent enoyl-ACP reductase (FabI) of Escherichia coli. J. Biol. Chem. 269 5493-6 PubMed
  5. ↑ Link, AJ et al. (1997) Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12. Electrophoresis 18 1259-313 PubMed
  6. ↑ Egan, AF & Russell, RR (1973) Conditional mutations affecting the cell envelope of Escherichia coli K-12. Genet. Res. 21 139-52 PubMed
  7. ↑ 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
  8. ↑ 8.0 8.1 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
  9. ↑ 9.0 9.1 CGSC: The Coli Genetics Stock Center
  10. ↑ 10.0 10.1 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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