minC: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="Y46a9c1307452c"  class=" tableEdit Gene_nomenclature_table" 
 
|-
!align=left {{table_heading_style}} |Standard name
||
''minC''
|-
|-
!{{table_heading_style}} |Standard name
!align=left {{table_heading_style}} |Mnemonic
|
||
''minC''
Minicell
|-
|-
!{{table_heading_style}} |Mnemonic
!align=left {{table_heading_style}} |Synonyms
|
||
''ECK1164, b1176, JW1165, minB''<ref name='LIB:Riley_2006'/>, minB''


|-
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!{{table_heading_style}} |Synonyms
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.12905.Y46a9c1307452c&page=12905&pagename={{FULLPAGENAMEE}}&type=1&template=Gene_nomenclature_table edit table]</span> ||
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''ECK1164, b1176, JW1165, minB''<ref name='LIB:Riley_2006'/>
|-
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===Notes===
===Notes===
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{|class = 'sortable' {{Prettytable}} id='131915'
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="H46a9c130edb5f"  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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26.39 minutes&nbsp;
26.39 minutes&nbsp;
|
|
MG1655: 1225303..1224608<br />{{GBrowseFigureByCoord|1223608|1226303|ecoli|MG1655}}
MG1655: 1225303..1224608<br /><gbrowseImage>
name=NC_000913:1224608..1225303
source=MG1655
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG10596 EcoCyc]
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG10596 EcoCyc]
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli/?q=MG1655:1223608..1226303 GBrowse(MG1655)]
{{GBrowseLink|MG1655|NC_000913|1223608|1226303|GBrowse(MG1655)}}
   
   
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli/?plugin=FastaDumper&name=MG1655:1224608..1225303&plugin_action=Go FASTA Dump]
{{GBrowseFastaLink|MG1655|NC_000913|1224608|1225303|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG10596 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=EG10596 EcoCyc Sequence Dump]  
|-
|-
|
[[REL606]]
|
 
|
NC_012967: 1226241..1225546<br /><gbrowseImage>
name=NC_012967:1225546..1226241
source=REL606
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|REL606|NC_012967|1225546|1226241|GBrowse (REL606)}}
|
{{GBrowseFastaLink|REL606|NC_012967|1225546|1226241|FASTA Dump}}
|-
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[[BW2952]]
|
 
|
NC_012759: 1113329..1114024<br /><gbrowseImage>
name=NC_012759:1113329..1114024
source=BW2952
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|BW2952|NC_012759|1113329|1114024|GBrowse (BW2952)}}
|
{{GBrowseFastaLink|BW2952|NC_012759|1113329|1114024|FASTA Dump}}
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W3110
W3110
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&nbsp;
&nbsp;
|
|
W3110: 1227657..1226962<br />{{GBrowseFigureByCoord|1225962|1228657|ecoli_W3110|W3110}}
W3110: 1227657..1226962<br /><gbrowseImage>
name=NC_007779:1226962..1227657
source=W3110
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli_W3110/?q=W3110:1225962..1228657 GBrowse(W3110)]
{{GBrowseLink|W3110|NC_007779|1225962|1228657|GBrowse(W3110)}}
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli_W3110/?plugin=FastaDumper&name=W3110:1226962..1227657&plugin_action=Go FASTA Dump]
{{GBrowseFastaLink|W3110|NC_007779|1226962|1227657|FASTA Dump}}
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[[DH10B]]
|
 
|
DH10B: 1265544..1264849<br /><gbrowseImage>
name=NC_010473:1264849..1265544
source=DH10B
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|DH10B|NC_010473|1263459|1266934|GBrowse(DH10B)}}
|
{{GBrowseFastaLink|DH10B|NC_010473|1263459|1266934|FASTA Dump}}
 
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===Notes===
===Notes===
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!Feature type!!Location!!Description
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
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====Notes====
====Notes====
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;" id="I46a9c131db9a4"  class=" tableEdit Gene_allele_table dataTable" 
|- {{table_heading_style}}
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!|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
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|
|
[[PMID:16738554]]<ref name=PMID:16738554/>
PMID:16738554
|
|
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]<br>[http://cgsc2.biology.yale.edu/Strain.php?ID=107356 CGSC9075]<ref name='LIB:cgsc'/>  
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]<br>[http://cgsc2.biology.yale.edu/Strain.php?ID=107356 CGSC9075]<ref name='LIB:cgsc'/>  
|
|
   
   
|-
|
minCG10D
|
|
G10D
|
|
(in minC19; reduces affinity of minC for ftsZ)
|
|
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Strain variation; seeded from [http://www.uniprot.org/uniprot/P18196 UniProt:P18196]
|-  
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|
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[[PMID:16738554]]<ref name=PMID:16738554/>
PMID:16738554
|
|
[[cgscmutation:101874|CGSC:101874]]
[[cgscmutation:101874|CGSC:101874]]
|
|
   
   
|-
|
''ftsK1::cat ΔminB''
|
|
|
Growth Phenotype
|
minicell chains
|
PMID:9829960
|
|
|-
|
''minC28''
|


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|
 
|
 
|
PMID:8752322
|
 
|
reduced interaction with MinD according to 2 hybrid screen
|-
|
minC
|
deletion
|
 
|
Sensitivity to
|
increases sensitivity to bicyclomycin
|
PMID:21357484
|
 
|
fig 2
 
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===Notes===
===Notes===


==Genetic Interactions==
{{BacktoTop}}
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===Notes===


==Genetic Resources==
==Genetic Resources==
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JW1165
JW1165
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[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
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Primer 2:CCATTTAACGGTTGAACGGTCAA  
Primer 2:CCATTTAACGGTTGAACGGTCAA  
|-
|-
|
[[:Category:Kohara_Phage:4D1|4D1]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=242 Genobase]
|
PMID:3038334
|-
|
[[:Category:Kohara_Phage:2A3|2A3]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=243 Genobase]
|
PMID:3038334
|-  
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[[elbA:Gene|zcf-117::Tn10]]
[[elbA:Gene|zcf-117::Tn10]]
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|
|
est. P1 cotransduction: 62% <ref name='LIB:Nichols_linked_Tn'/>  
est. P1 cotransduction: 62% <ref name='LIB:Nichols_linked_Tn'/>  
|-
|-  
|
|
[[fadR:Gene|fadR13::Tn10]]
[[fadR:Gene|fadR13::Tn10]]
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|
|
est. P1 cotransduction: 72% <ref name='LIB:Nichols_linked_Tn'/>  
est. P1 cotransduction: 72% <ref name='LIB:Nichols_linked_Tn'/>  
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===Notes===
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!Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-
|-  
|
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10596 EcoCyc:EG10596] 
EcoCyc:EG10596
|
|
''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=EB0591 EchoBASE:EB0591] 
EcoGene:EG10596
|
|
''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=b1176 EcoliGenExpDB:b1176] 
RegulonDB:ECK120000589
|
|
''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=C1623 ECOL199310CYC:C1623]
[http://www.ncbi.nlm.nih.gov/gene?term=945744 GeneID:945744]
|
|
Escherichia coli str. K-12 substr. MG1655
|-
|-  
|
|
[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[EchoBASE]]
|
|
[http://ecogene.org/geneinfo.php?eg_id=EG10596 EcoGene:EG10596] 
EchoBASE:EB0591
|
|
''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=MINC ECOO157CYC:MINC] 
ASAP:ABE-0003941
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
|-
 
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|- class="tableEdit_footer"
[http://cgsc.biology.yale.edu CGSC] ([[CGSC|EcoliWiki Page]])
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.12905.L46a9c1331feac&page=12905&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/31329 CGSC:31329] 
|
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===Notes===
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===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:min genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:Gene_List:BW2952]]

Latest revision as of 20:30, 19 September 2013

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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

minC

Mnemonic

Minicell

Synonyms

ECK1164, b1176, JW1165, minB[1], minB

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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

26.39 minutes 

MG1655: 1225303..1224608
<gbrowseImage> name=NC_000913:1224608..1225303 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1226241..1225546
<gbrowseImage> name=NC_012967:1225546..1226241 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1113329..1114024
<gbrowseImage> name=NC_012759:1113329..1114024 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1227657..1226962
<gbrowseImage> name=NC_007779:1226962..1227657 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1265544..1264849
<gbrowseImage> name=NC_010473:1264849..1265544 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
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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

ΔminC (Keio:JW1165)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC9075[3]

minCG10D

G10D

(in minC19; reduces affinity of minC for ftsZ)

Strain variation; seeded from UniProt:P18196

ΔminC765::kan

PMID:16738554[2]

CGSC:101874

ftsK1::cat ΔminB

Growth Phenotype

minicell chains

PMID:9829960[4]

minC28

PMID:8752322[5]

reduced interaction with MinD according to 2 hybrid screen

minC

deletion

Sensitivity to

increases sensitivity to bicyclomycin

PMID:21357484[6]

fig 2

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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

JW1165

Plasmid clone

Shigen

PMID:16769691[7]

Status:Clone OK

Primer 1:GCCTCAAACACGCCAATCGAGCT

Primer 2:CCATTTAACGGTTGAACGGTCAA

4D1

Kohara Phage

Genobase

PMID:3038334[8]

2A3

Kohara Phage

Genobase

PMID:3038334[8]

zcf-117::Tn10

Linked marker

CAG18463 = CGSC7363[3]

est. P1 cotransduction: 62% [9]

fadR13::Tn10

Linked marker

CAG18497 = CGSC7365[3]

est. P1 cotransduction: 72% [9]

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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:EG10596

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10596

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000589

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945744

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0591

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003941

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. ↑ 2.0 2.1 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
  3. ↑ 3.0 3.1 3.2 CGSC: The Coli Genetics Stock Center
  4. ↑ Yu, XC et al. (1998) Role of the C terminus of FtsK in Escherichia coli chromosome segregation. J. Bacteriol. 180 6424-8 PubMed
  5. ↑ Huang, J et al. (1996) Interaction between FtsZ and inhibitors of cell division. J. Bacteriol. 178 5080-5 PubMed
  6. ↑ Tran, L et al. (2011) Single-gene deletion mutants of Escherichia coli with altered sensitivity to bicyclomycin, an inhibitor of transcription termination factor Rho. J. Bacteriol. 193 2229-35 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 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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