carB:Gene: Difference between revisions

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Primer 2:CCTTTGATCTGTGCGTGCATTTC  
Primer 2:CCTTTGATCTGTGCGTGCATTTC  
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[[:Category:Kohara_Phage:22B12|22B12]]
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Kohara Phage
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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=103 Genobase]
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PMID:3038334
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est. P1 cotransduction: 8% <ref name='LIB:Nichols_linked_Tn'/> <br />  
est. P1 cotransduction: 8% <ref name='LIB:Nichols_linked_Tn'/> <br />  
Synonyms:zab-3051::Tn10 nnnThe start of leuO was reannotated by Riley et al. (2006).  
Synonyms:zab-3051::Tn10 nnnThe start of leuO was reannotated by Riley et al. (2006).  
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[[:Category:Kohara_Phage:22B12|22B12]]
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Kohara Phage
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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=103 Genobase]
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PMID:3038334


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!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10135 EcoCyc:EG10135]
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[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
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[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB0133 EchoBASE:EB0133]
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[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])
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[http://chase.ou.edu/macro/searchlink.php?bnum=b0033 EcoliGenExpDB:b0033]
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[http://BioCyc.org/ECOL199310/ ECOL199310CYC] ([[ECOL199310CYC|EcoliWiki Page]])
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[http://BioCyc.org/ECOL199310/new-image?object=C0041 ECOL199310CYC:C0041]
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[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
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[http://ecogene.org/geneinfo.php?eg_id=EG10135 EcoGene:EG10135]
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[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])
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[http://BioCyc.org/ECOO157/new-image?object=CARB ECOO157CYC:CARB]
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[http://cgsc.biology.yale.edu CGSC] ([[CGSC|EcoliWiki Page]])
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[http://cgsc.biology.yale.edu/cgi-bin/sybgw/cgsc/Site/935 CGSC:935]
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[https://asap.ahabs.wisc.edu/asap/logon.php ASAP] ([[ASAP|EcoliWikiPage]])
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[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0000121&formSubmitReturn=1 ASAP:ABE-0000121]
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Revision as of 19:40, 21 September 2011

{{#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

carB

Mnemonic

Carbamoyl P

Synonyms

ECK0034, b0033, JW0031, arg+ura, cap, pyrA[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

0.66 minutes 

MG1655: 30817..34038
<gbrowseImage> name=NC_000913:30817..34038 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 34888..38109
<gbrowseImage> name=NC_012967:34888..38109 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 30817..34038
<gbrowseImage> name=NC_012759:30817..34038 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 30817..34038
<gbrowseImage> name=AC_000091:30817..34038 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 30817..34038
<gbrowseImage> name=NC_010473:30817..34038 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

30820

Edman degradation

PMID:6308632[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

ΔcarB (Keio:JW0031)

deletion

deletion

PMID:16738554[3]

Shigen
CGSC8349[4]

carB96::Tn10

Insertion at 33,963 bp in MG1655 (NC_000913)

adapted from Nichols et al.[5]

CAG12093 = CGSC7322[4]

Synonyms: car-96::Tn10

carB671

PMID:4373646[6]

CGSC:5037

ΔcarB8

CGSC:6595

carB96::Tn10

CGSC:7106

carB3092::Tn10kan

CGSC:38009

ΔcarB745::kan

PMID:16738554[3]

CGSC:100240


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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

JW0031

Plasmid clone

Shigen

PMID:16769691[7]

Status:Clone OK

Primer 1:GCCCCAAAACGTACAGATATAAA

Primer 2:CCTTTGATCTGTGCGTGCATTTC

22B12

Kohara Phage

Genobase

PMID:3038334[8]

thrA34::Tn10

Linked marker

CAG18442 = CGSC7320[4]

est. P1 cotransduction: 30% [5]
Synonyms:thr-34::Tn10

leuO3051::Tn10

Linked marker

CAG12095 = CGSC7324[4]

est. P1 cotransduction: 8% [5]
Synonyms:zab-3051::Tn10 nnnThe start of leuO was reannotated by Riley et al. (2006).

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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
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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. ↑ Nyunoya, H & Lusty, CJ (1983) The carB gene of Escherichia coli: a duplicated gene coding for the large subunit of carbamoyl-phosphate synthetase. Proc. Natl. Acad. Sci. U.S.A. 80 4629-33 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 4.3 CGSC: The Coli Genetics Stock Center
  5. ↑ 5.0 5.1 5.2 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).
  6. ↑ Mergeay, M et al. (1974) Physiology and genetics of carbamoylphosphate synthesis in Escherichia coli K12. Mol. Gen. Genet. 133 299-316 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. ↑ 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

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