prlC:Gene: Difference between revisions

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Refreshing information from GenBank record NC_000913
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!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
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!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
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!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
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!|Database!!Accession!!Notes
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG11441 ECOCYC:EG11441]
EcoCyc:EG11441
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Escherichia coli str. K-12 substr. MG1655  
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[EcoGene]]
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[http://ecogene.org/geneinfo.php?eg_id=EG11441 EcoGene:EG11441]
EcoGene:EG11441
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Escherichia coli str. K-12 substr. MG1655  
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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Escherichia coli str. K-12 substr. MG1655  
Escherichia coli str. K-12 substr. MG1655  
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[[RegulonDB]]
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RegulonDB:ECK120001405
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[[EchoBASE]]
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EchoBASE:EB1411
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[[ASAP]]
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ASAP:ABE-0011421
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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Revision as of 07:31, 27 May 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

prlC

Mnemonic

Protein localization

Synonyms

ECK3483, b3498, JW3465, opdA[1], opdA

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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

78.48 minutes 

MG1655: 3643205..3641163
<gbrowseImage> name=NC_000913:3641163..3643205 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3575872..3573830
<gbrowseImage> name=NC_012967:3573830..3575872 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3529657..3531699
<gbrowseImage> name=NC_012759:3529657..3531699 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3995233..3997275
<gbrowseImage> name=AC_000091:3995233..3997275 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3740950..3738908
<gbrowseImage> name=NC_010473:3738908..3740950 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

3641166

Edman degradation

PMID:9792922[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

ΔprlC (Keio:JW3465)

deletion

deletion

PMID:16738554[3]

Shigen
CGSC10567[4]

prlC::Tn5KAN-I-SceI (FB21240)

Insertion at nt 1400 in Plus orientation

PMID:15262929[5]

E. coli Genome Project:FB21240

contains pKD46

prlC::Tn5KAN-I-SceI (FB21241)

Insertion at nt 1400 in Plus orientation

PMID:15262929[5]

E. coli Genome Project:FB21241

does not contain pKD46

ΔprlC754::kan

PMID:16738554[3]

CGSC:102462


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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

JW3465

Plasmid clone

Shigen

PMID:16769691[6]

Status:Clone OK

Primer 1:GCCACGAATCCGTTACTGACTCC

Primer 2:CCGCCCTTAATGCCGTAATGCTC

12E4

Kohara Phage

Genobase

PMID:3038334[7]

6A4

Kohara Phage

Genobase

PMID:3038334[7]

zhg-50::Tn10

Linked marker

CAG18450 = CGSC7450[4]

est. P1 cotransduction: 10% [8]
Synonyms:zhf-50::Tn10, zhf-5::Tn10

zic-4901::Tn10

Linked marker

CAG18492 = CGSC7457[4]

est. P1 cotransduction: % [8]

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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:EG11441

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11441

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948016

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001405

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1411

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0011421

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. ↑ Jiang, X et al. (1998) Escherichia coli prlC gene encodes a trypsin-like proteinase regulating the cell cycle. J. Biochem. 124 980-5 PubMed
  3. ↑ 3.0 3.1 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
  4. ↑ 4.0 4.1 4.2 CGSC: The Coli Genetics Stock Center
  5. ↑ 5.0 5.1 Kang, Y et al. (2004) Systematic mutagenesis of the Escherichia coli genome. J. Bacteriol. 186 4921-30 PubMed
  6. ↑ 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
  7. ↑ 7.0 7.1 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
  8. ↑ 8.0 8.1 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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