yfaT: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:
50.27 minutes 
50.27 minutes 
|
|
MG1655: 2332981..2332358<br />{{GBrowseFigureByCoord|2332358|2332981|ecoli|MG1655}}
MG1655: 2332981..2332358<br /><gbrowseImage>
name=NC_000913:2332358..2332981
source=ecoli
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=G7156 EcoCyc]
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=G7156 EcoCyc]
Line 89: Line 94:


|
|
NC_012967: 2281659..2281036<br />{{GBrowseFigureByCoord|2281036|2281659|REL606|NC_012967}}
NC_012967: 2281659..2281036<br /><gbrowseImage>
name=NC_012967:2281036..2281659
source=REL606
preset=GeneLocation
</gbrowseImage>
 
|
|
{{GBrowseLink|REL606|NC_012967|2281036|2281659|GBrowse (REL606)}}
{{GBrowseLink|REL606|NC_012967|2281036|2281659|GBrowse (REL606)}}
Line 100: Line 110:


|
|
NC_012759: 2218163..2218786<br />{{GBrowseFigureByCoord|2218163|2218786|BW2952|NC_012759}}
NC_012759: 2218163..2218786<br /><gbrowseImage>
name=NC_012759:2218163..2218786
source=BW2952
preset=GeneLocation
</gbrowseImage>
 
|
|
{{GBrowseLink|BW2952|012759|2218163|NC_2218786|GBrowse (BW2952)}}
{{GBrowseLink|BW2952|012759|2218163|NC_2218786|GBrowse (BW2952)}}
Line 111: Line 126:
&nbsp;
&nbsp;
|
|
W3110: 2339629..2339006<br />{{GBrowseFigureByCoord|2339006|2339629|ecoli_W3110|W3110}}
W3110: 2339629..2339006<br /><gbrowseImage>
name=AC_000091:2339006..2339629
source=ecoli_W3110
preset=GeneLocation
</gbrowseImage>
 
|
|
{{GBrowseLink|ecoli_W3110|AC_000091|2338006|2340629|GBrowse(W3110)}}  
{{GBrowseLink|ecoli_W3110|AC_000091|2338006|2340629|GBrowse(W3110)}}  
Line 122: Line 142:


|
|
DH10B: 2423969..2423346<br />{{GBrowseFigureByCoord|2423346|2423969|ecoli_DH10B|DH10B}}
DH10B: 2423969..2423346<br /><gbrowseImage>
name=NC_010473:2423346..2423969
source=ecoli_DH10B
preset=GeneLocation
</gbrowseImage>
 
|
|
{{GBrowseLink|ecoli_DH10B|NC_010473|2422100|2425215|GBrowse(DH10B)}}
{{GBrowseLink|ecoli_DH10B|NC_010473|2422100|2425215|GBrowse(DH10B)}}

Revision as of 22:40, 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

yfaT

Mnemonic

Systematic nomenclature

Synonyms

ECK2221, b2229, JW2223[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

50.27 minutes 

MG1655: 2332981..2332358
<gbrowseImage> name=NC_000913:2332358..2332981 source=ecoli preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2281659..2281036
<gbrowseImage> name=NC_012967:2281036..2281659 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2218163..2218786
<gbrowseImage> name=NC_012759:2218163..2218786 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2339629..2339006
<gbrowseImage> name=AC_000091:2339006..2339629 source=ecoli_W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2423969..2423346
<gbrowseImage> name=NC_010473:2423346..2423969 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

ΔyfaT (Keio:JW2223)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC9794[3]

ΔyfaT783::kan

PMID:16738554[2]

CGSC:104626


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

JW2223

Plasmid clone

Shigen

PMID:16769691[4]

Status:Clone OK

Primer 1:GCCAGGCACGGGCTGCTGGCGCT

Primer 2:CCTCGCGCCAGAAAATTTAAACG

atoS298::Tn10

Linked marker

CAG12177 gyrA+ = CGSC7525[3]

est. P1 cotransduction: 65% [5]
Synonyms:zeh-298::Tn10, zej-298::Tn10 nnnThe original CAG12177 was NalR. This is a NalS derivative constructed by S. McAteer (CGSC).

zfa-723::Tn10

Linked marker

CAG12178 gyrA+ = CGSC7526[3]

est. P1 cotransduction: 69% [5]
Synonyms:zei-723::Tn10, zfa-723::Tn10 nnnThe original CAG12178 was NalR. This is a NalS derivative constructed by S. McAteer (CGSC).

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:G7156

EchoBASE (EcoliWiki Page)

EchoBASE:EB3835

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2229

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C2771

EcoGene (EcoliWiki Page)

EcoGene:EG14082

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:Z3482

ASAP (EcoliWikiPage)

ASAP:ABE-0007366


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. ↑ 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
  5. ↑ 5.0 5.1 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=yfaT:Gene&oldid=1181848"