hns:Gene: Difference between revisions

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!|Feature type!!Location!!Description
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes


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unable to respire [[Carbon sources|L-Asparagine]]
unable to respire [[Carbon sources|L-Asparagine]]
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PMID:16095938
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&Delta;hns::kan
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deletion
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[[Biolog]]:respiration
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unable to respire [[Carbon sources|L-Aspartate]]
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PMID:16095938
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[[cgscmutation:101388|CGSC:101388]]
[[cgscmutation:101388|CGSC:101388]]
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&Delta;hns::kan
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deletion
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unable to respire [[Carbon sources|L-Aspartate]]
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PMID:16095938
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Revision as of 22:42, 10 May 2010

{{#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 Alleles and Phenotypes 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

hns

Mnemonic

Histone-like protein H-NS

Synonyms

ECK1232, b1237, JW1225, bglY, cur, drc, drdX, drs, irk, mssyA, msyA, osmZ, pilG, topX, virR, hnsA, topS, B1, H1[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

27.84 minutes 

MG1655: 1292145..1291732
gbrowse_img.php?coord=1291732..1292145&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 1292716..1292303
gbrowse_img.php?coord=1292303..1292716&genome=REL606&name=NC_012967&trackset=0&width=300&.png

BW2952

NC_012759: 1181230..1181643
gbrowse_img.php?coord=1181230..1181643&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

W3110

 

W3110: 1294499..1294086
gbrowse_img.php?coord=1294086..1294499&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 1332386..1331973
gbrowse_img.php?coord=1331973..1332386&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

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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

Δhns (Keio:JW1225)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC9111[3]

hns

PMID:12519969[4]

ASAP

At position 323 in Plus orientation, does not contain plasmid pKD46.
ASAP strain name: FB20271

Δhns::kan

deletion

Biolog:respiration

unable to respire D-Galactoniate

PMID:16095938[5]

Δhns::kan

deletion

Biolog:respiration

unable to respire D-Galacturonate

PMID:16095938[5]

Δhns::kan

deletion

Biolog:respiration

unable to respire D-Glucuronate

PMID:16095938[5]

Δhns::kan

deletion

Biolog:respiration

unable to respire Acetate

PMID:16095938[5]

Δhns::kan

deletion

Biolog:respiration

unable to respire a-Hydroxybutyrate

PMID:16095938[5]

Δhns::kan

deletion

Biolog:respiration

unable to respire a-Ketobutyrate

PMID:16095938[5]

Δhns::kan

deletion

Biolog:respiration

unable to respire a-Ketoglutarate

PMID:16095938[5]

Δhns::kan

deletion

Biolog:respiration

unable to respire Succinate

PMID:16095938[5]

Δhns::kan

deletion

Biolog:respiration

unable to respire Bromosuccinate

PMID:16095938[5]

Δhns::kan

deletion

Biolog:respiration

unable to respire L-Alanine

PMID:16095938[5]

Δhns::kan

deletion

Biolog:respiration

unable to respire L-Asparagine

PMID:16095938[5]

Δhns::kan

deletion

Biolog:respiration

unable to respire L-Aspartate

PMID:16095938[5]

hns-206

CGSC:19435

hns-1

CGSC:26967

Δhns-746::kan

PMID:16738554[2]

CGSC:101388


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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

JW1225

Plasmid clone

Shigen

PMID:16769691[6]

Status:Clone OK

Primer 1:GCCAGCGAAGCACTTAAAATTCT

Primer 2:CCTTGCTTGATCAGGAAATCGTC

fadR13::Tn10

Linked marker

CAG18497 = CGSC7365[3]

est. P1 cotransduction: 5% [7]

oppC506::Tn10

Linked marker

CAG12169 = CGSC7369[3]

est. P1 cotransduction: 66% [7]
Synonyms:zch-506::Tn10, zci-506::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 (EcoliWiki Page)

EcoCyc:EG10457

EchoBASE (EcoliWiki Page)

EchoBASE:EB0452

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1237

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C1701

EcoGene (EcoliWiki Page)

EcoGene:EG10457

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:HNS

CGSC (EcoliWiki Page)

CGSC:960

ASAP (EcoliWikiPage)

ASAP:ABE-0004152


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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. ↑ Glasner, JD et al. (2003) ASAP, a systematic annotation package for community analysis of genomes. Nucleic Acids Res. 31 147-51 PubMed
  5. ↑ 5.00 5.01 5.02 5.03 5.04 5.05 5.06 5.07 5.08 5.09 5.10 5.11 Ito, M et al. (2005) Functional analysis of 1440 Escherichia coli genes using the combination of knock-out library and phenotype microarrays. Metab. Eng. 7 318-27 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 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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