puuP:Gene

From EcoliWiki
Jump to: navigation, search

{{#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

<protect>

Nomenclature

[back to top]


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

Standard name

puuP

Mnemonic

PUtrescine Utilization

Synonyms

ECK1291, b1296, JW1289, ycjJ[1], ycjJ

</protect>

Notes

Location(s) and DNA Sequence

[back to top]


<protect> 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

29.22 minutes 

MG1655: 1357211..1355826
<gbrowseImage> name=NC_000913:1355826..1357211 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1356170..1357555
<gbrowseImage> name=NC_012967:1356170..1357555 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1246675..1248060
<gbrowseImage> name=NC_012759:1246675..1248060 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1360901..1359516
<gbrowseImage> name=NC_007779:1359516..1360901 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1446607..1445222
<gbrowseImage> name=NC_010473:1445222..1446607 source=DH10B preset=GeneLocation </gbrowseImage>

</protect>

Notes

Sequence Features

[back to top]


See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes

<protect></protect>

Notes

Alleles and Phenotypes

[back to top]


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

Strain DH10B

Y110C

Nonsynonomous mutation

PMID:18245285[2]

ASAP

This is a SNP in E. coli K-12 Strain DH10B

puuP(del) (Keio:JW1289)

deletion

deletion

PMID:16738554[3]

Shigen

CGSC9158[4]

puuP732(del)::kan

PMID:16738554[3]

CGSC:102558

puuP(del)

deletion

deletion

Mutation decreases uptake of putrescine from medium, figure 2A.

PMID:19181795[5]


<protect></protect>

Notes

Genetic Interactions

[back to top]


<protect>

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

</protect>

Notes

Genetic Resources

[back to top]


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

Resource Resource Type Source Notes/Reference

JW1289

Plasmid clone

Shigen

PMID:16769691[6]

Status:Clone OK

Primer 1:GCCGCTATTAATTCACCACTGAA

Primer 2:CCtGTTTCACTCACCGGCGTTCT

E14F6

Kohara Phage

Genobase

PMID:3038334[7]

1C2

Kohara Phage

Genobase

PMID:3038334[7]

trpC83::Tn10

Linked marker

CAG18455 = CGSC7371[4]

est. P1 cotransduction: 20% [8]
Synonyms:trpB83::Tn10

zcj-233::Tn10

Linked marker

CAG12028 = CGSC7373[4]

est. P1 cotransduction: 64% [8]
Synonyms:zci-233::Tn10

<protect></protect>

Notes

Accessions in Other Databases

[back to top]


See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc

EcoCyc:G6643

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13907

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003238

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946287

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3666

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004362

Escherichia coli str. K-12 substr. MG1655

<protect></protect>

Notes

Links

[back to top]



<protect>

References

[back to top]


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. Durfee, T et al. (2008) The complete genome sequence of Escherichia coli DH10B: insights into the biology of a laboratory workhorse. J. Bacteriol. 190 2597-606 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. Kurihara, S et al. (2009) The putrescine Importer PuuP of Escherichia coli K-12. J. Bacteriol. 191 2776-82 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).

Categories