envR:Gene: Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older editNewer edit →
/Volumes/r3/t3/ul/working/touchTables/touch_all_tables.php
Convert to gbrowse_img.php extension.
Line 75: Line 75:
73.51 minutes 
73.51 minutes 
|
|
MG1655: 3411487..3410825<br />{{GBrowseFigureByCoord|3410825|3411487|ecoli|MG1655}}
MG1655: 3411487..3410825<br /><gbrowseImage>
name=NC_000913:3410825..3411487
source=ecoli
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG11741 EcoCyc]
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG11741 EcoCyc]
Line 89: Line 94:


|
|
NC_012967: 3341356..3340694<br />{{GBrowseFigureByCoord|3340694|3341356|REL606|NC_012967}}
NC_012967: 3341356..3340694<br /><gbrowseImage>
name=NC_012967:3340694..3341356
source=REL606
preset=GeneLocation
</gbrowseImage>
 
|
|
{{GBrowseLink|REL606|NC_012967|3340694|3341356|GBrowse (REL606)}}
{{GBrowseLink|REL606|NC_012967|3340694|3341356|GBrowse (REL606)}}
Line 100: Line 110:


|
|
NC_012759: 3297973..3298635<br />{{GBrowseFigureByCoord|3297973|3298635|BW2952|NC_012759}}
NC_012759: 3297973..3298635<br /><gbrowseImage>
name=NC_012759:3297973..3298635
source=BW2952
preset=GeneLocation
</gbrowseImage>
 
|
|
{{GBrowseLink|BW2952|012759|3297973|NC_3298635|GBrowse (BW2952)}}
{{GBrowseLink|BW2952|012759|3297973|NC_3298635|GBrowse (BW2952)}}
Line 111: Line 126:
&nbsp;
&nbsp;
|
|
W3110: 3413320..3412658<br />{{GBrowseFigureByCoord|3412658|3413320|ecoli_W3110|W3110}}
W3110: 3413320..3412658<br /><gbrowseImage>
name=AC_000091:3412658..3413320
source=ecoli_W3110
preset=GeneLocation
</gbrowseImage>
 
|
|
{{GBrowseLink|ecoli_W3110|AC_000091|3411658|3414320|GBrowse(W3110)}}  
{{GBrowseLink|ecoli_W3110|AC_000091|3411658|3414320|GBrowse(W3110)}}  
Line 122: Line 142:


|
|
DH10B: 3509232..3508570<br />{{GBrowseFigureByCoord|3508570|3509232|ecoli_DH10B|DH10B}}
DH10B: 3509232..3508570<br /><gbrowseImage>
name=NC_010473:3508570..3509232
source=ecoli_DH10B
preset=GeneLocation
</gbrowseImage>
 
|
|
{{GBrowseLink|ecoli_DH10B|NC_010473|3507246|3510556|GBrowse(DH10B)}}
{{GBrowseLink|ecoli_DH10B|NC_010473|3507246|3510556|GBrowse(DH10B)}}

Revision as of 20:39, 26 July 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 Sequence Features Alleles and Phenotypes Genetic Resources Accessions Links References Suggestions

Nomenclature

[back to top]


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

Standard name

envR

Mnemonic

Envelope

Synonyms

ECK3251, b3264, JW3232, acrS, yhdK[1]

edit table


Notes

Location(s) and DNA Sequence

[back to top]


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

73.51 minutes 

MG1655: 3411487..3410825
<gbrowseImage> name=NC_000913:3410825..3411487 source=ecoli preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3341356..3340694
<gbrowseImage> name=NC_012967:3340694..3341356 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3297973..3298635
<gbrowseImage> name=NC_012759:3297973..3298635 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3413320..3412658
<gbrowseImage> name=AC_000091:3412658..3413320 source=ecoli_W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3509232..3508570
<gbrowseImage> name=NC_010473:3508570..3509232 source=ecoli_DH10B preset=GeneLocation </gbrowseImage>

edit table


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
edit table


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

ΔenvR (Keio:JW3232)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC10445[3]

envR::Tn5KAN

PMID:12519969[4]

ASAP

At position 577 in Minus orientation, contains plasmid pKD46.
ASAP strain name: FB21089

envR::Tn5KAN

PMID:12519969[4]

ASAP

At position 577 in Minus orientation, does not contain plasmid pKD46.
ASAP strain name: FB21090

ΔenvR::kan

deletion

Biolog:respiration

unable to respire N-Acetyl-D-glucosamine

PMID:16095938[5]

ΔenvR::kan

deletion

Biolog:respiration

unable to respire b-Methyl-D-glucoside

PMID:16095938[5]

ΔenvR::kan

deletion

Biolog:respiration

unable to respire Acetate

PMID:16095938[5]

ΔenvR::kan

deletion

Biolog:respiration

unable to respire a-Hydroxybutyrate

PMID:16095938[5]

ΔenvR::kan

deletion

Biolog:respiration

unable to respire a-Ketobutyrate

PMID:16095938[5]

ΔenvR::kan

deletion

Biolog:respiration

unable to respire a-Ketoglutarate

PMID:16095938[5]

ΔenvR::kan

deletion

Biolog:respiration

unable to respire Bromosuccinate

PMID:16095938[5]

ΔenvR::kan

deletion

Biolog:respiration

unable to respire L-Aspartate

PMID:16095938[5]

ΔenvR782::kan

PMID:16738554[2]

CGSC:100722


edit table


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

JW3232

Plasmid clone

Shigen

PMID:16769691[6]

Status:Clone OK

Primer 1:GCCGCAAAAAGAACCAAAGCCGA

Primer 2:CCCATGACACTTAATTCATTCGT

zhc-6::Tn10

Linked marker

CAG12153 = CGSC7442[3]

est. P1 cotransduction: 12% [7]
Synonyms:zha-6::Tn10

acrF3083::Tn10

Linked marker

CAG12075 = CGSC7447[3]

est. P1 cotransduction: 88% [7]
Synonyms:zhd-3083::Tn10, zhe-3083::Tn10

edit table


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 (EcoliWiki Page)

EcoCyc:EG11741

EchoBASE (EcoliWiki Page)

EchoBASE:EB1692

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3264

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C4030

EcoGene (EcoliWiki Page)

EcoGene:EG11741

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:ENVR

ASAP (EcoliWikiPage)

ASAP:ABE-0010712


edit table


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. ↑ 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. ↑ 4.0 4.1 Glasner, JD et al. (2003) ASAP, a systematic annotation package for community analysis of genomes. Nucleic Acids Res. 31 147-51 PubMed
  5. ↑ 5.0 5.1 5.2 5.3 5.4 5.5 5.6 5.7 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).

Categories

Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=envR:Gene&oldid=1176000"