fruA:Gene: Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older editNewer edit →
Data loaded by TableEdit_Loader.
Update TableEdit tables.
Line 31: Line 31:
*  
*  
****************************************************************************************** -->{{Gene_nomenclature_help}}
****************************************************************************************** -->{{Gene_nomenclature_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  
{| id="K46a9d7974290e" class=" tableEdit Gene_nomenclature_table"


|-
|-
!align=left {{table_heading_style}} |Standard name
!align=left |Standard name
||
||
''fruA''  
''fruA''  
|-
|-
!align=left {{table_heading_style}} |Mnemonic
!align=left |Mnemonic
||
||


|-
|-
!align=left {{table_heading_style}} |Synonyms
!align=left |Synonyms
||
||
''ECK2160, b2167, JW2154, ptsF''<ref name='LIB:Riley_2006'/>
''ECK2160, b2167, JW2154, ptsF''<ref name='LIB:Riley_2006'/>


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.14895.K46a9d7974290e&page=14895&pagename={{FULLPAGENAMEE}}&type=1&template=Gene_nomenclature_table edit table] ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.14895.K46a9d7974290e&page=14895&pagename={{FULLPAGENAMEE}}&type=1&template=Gene_nomenclature_table edit table]</span> ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.14895.K46a9d7974290e-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.14895.K46a9d7974290e-->
Line 65: Line 65:
*  
*  
****************************************************************************************** -->{{Gene_location_help}}
****************************************************************************************** -->{{Gene_location_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{|   id="X46a9d797bf283" class=" tableEdit Gene_location_table"   
|- {{table_heading_style}}
|-
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
|-  
|-  
Line 82: Line 82:
{{GBrowseFastaLink|ecoli|NC_000913|2257741|2259432|FASTA Dump}}
{{GBrowseFastaLink|ecoli|NC_000913|2257741|2259432|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG10336 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=EG10336 EcoCyc Sequence Dump]  
|-
|
[[REL606]]
|
|
NC_012967: 2210907..2212598<br />{{GBrowseFigureByCoord|2210907|2212598|REL606|NC_012967}}
|
{{GBrowseLink|REL606|NC_012967|2210907|2212598|GBrowse (REL606)}}
|
{{GBrowseFastaLink|REL606|NC_012967|2210907|2212598|FASTA Dump}}
|-  
|-  
|
|
Line 104: Line 115:
|
|
{{GBrowseFastaLink|ecoli_DH10B|NC_010473|2345348|2353803|FASTA Dump}}  
{{GBrowseFastaLink|ecoli_DH10B|NC_010473|2345348|2353803|FASTA Dump}}  
|-
|
[[REL606]]
|
|
NC_012967: 2210907..2212598<br />{{GBrowseFigureByCoord|2210907|2212598|REL606|NC_012967}}
|
{{GBrowseLink|REL606|NC_012967|2210907|2212598|GBrowse (REL606)}}
|
{{GBrowseFastaLink|REL606|NC_012967|2210907|2212598|FASTA Dump}}


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.14895.X46a9d797bf283&page=14895&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_location_table edit table] || || || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.14895.X46a9d797bf283&page=14895&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_location_table edit table]</span> || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.14895.X46a9d797bf283-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.14895.X46a9d797bf283-->
Line 134: Line 134:
*  
*  
****************************************************************************************** -->{{Gene_sequence_features_help}}
****************************************************************************************** -->{{Gene_sequence_features_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{|   id="U46a9d79874dd6" class=" tableEdit Gene_sequence_features_table"   
|- {{table_heading_style}}
|-
!|Feature type!!Location!!Description
!|Feature type!!Location!!Description


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.14895.U46a9d79874dd6&page=14895&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_sequence_features_table edit table] || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.14895.U46a9d79874dd6&page=14895&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_sequence_features_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.14895.U46a9d79874dd6-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.14895.U46a9d79874dd6-->
Line 156: Line 156:
*  
*  
****************************************************************************************** -->{{Gene_alleles_help}}
****************************************************************************************** -->{{Gene_alleles_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;" {{Prettytable}}
{|   id="O46a9d798b9b33" class=" tableEdit Gene_allele_table"
|- {{table_heading_style}}
|-
!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
|-  
|-  
Line 330: Line 330:
   
   


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.14895.O46a9d798b9b33&page=14895&pagename={{FULLPAGENAMEE}}&type=&template=Gene_allele_table edit table] || || || || || || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.14895.O46a9d798b9b33&page=14895&pagename={{FULLPAGENAMEE}}&type=&template=Gene_allele_table edit table]</span> || || || || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.14895.O46a9d798b9b33-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.14895.O46a9d798b9b33-->
Line 348: Line 348:
*  
*  
****************************************************************************************** -->{{Gene_resources_help}}
****************************************************************************************** -->{{Gene_resources_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{|   id="V46a9d7996f9ee" class=" tableEdit Gene_resource_table"   
|- {{table_heading_style}}
|-
!|Resource!!Resource Type!!Source!!Notes/Reference
!|Resource!!Resource Type!!Source!!Notes/Reference
|-  
|-  
Line 387: Line 387:
Synonyms:zeg-722, zei-722::Tn10  
Synonyms:zeg-722, zei-722::Tn10  


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.14895.V46a9d7996f9ee&page=14895&pagename={{FULLPAGENAMEE}}&type=&template=Gene_resource_table edit table] || || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.14895.V46a9d7996f9ee&page=14895&pagename={{FULLPAGENAMEE}}&type=&template=Gene_resource_table edit table]</span> || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.14895.V46a9d7996f9ee-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.14895.V46a9d7996f9ee-->
Line 405: Line 405:
*  
*  
****************************************************************************************** -->{{Gene_accessions_help}}
****************************************************************************************** -->{{Gene_accessions_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{|   id="G46a9d79a0efe4" class=" tableEdit Gene_accessions_table"   
|- {{table_heading_style}}
|-
!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-  
|-  
Line 465: Line 465:
   
   


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.14895.G46a9d79a0efe4&page=14895&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table] || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.14895.G46a9d79a0efe4&page=14895&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.14895.G46a9d79a0efe4-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.14895.G46a9d79a0efe4-->
Line 483: Line 483:
*  
*  
****************************************************************************************** -->
****************************************************************************************** -->
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{|   id="M46a6f4cdb0c94" class=" tableEdit Links_table"   
|- {{table_heading_style}}
|-
!|Name!!URL!!Comments
!|Name!!URL!!Comments


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.14895.M46a6f4cdb0c94&page=14895&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table] || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.14895.M46a6f4cdb0c94&page=14895&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.14895.M46a6f4cdb0c94-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.14895.M46a6f4cdb0c94-->

Revision as of 01:12, 9 January 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

[back to top]


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

Standard name

fruA

Mnemonic
Synonyms

ECK2160, b2167, JW2154, ptsF[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

48.66 minutes 

MG1655: 2259432..2257741
gbrowse_img.php?coord=2257741..2259432&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 2210907..2212598
gbrowse_img.php?coord=2210907..2212598&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 2264744..2263053
gbrowse_img.php?coord=2263053..2264744&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 2350421..2348730
gbrowse_img.php?coord=2348730..2350421&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

edit table


Notes

Sequence Features

[back to top]


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

Feature type Location Description
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

ΔfruA (Keio:JW2154)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC9747[3]

fruA

PMID:12519969[4]

ASAP

At position 236 in Plus orientation, contains plasmid pKD46.
ASAP strain name: FB20664

fruA

PMID:12519969[4]

ASAP

At position 236 in Plus orientation, does not contain plasmid pKD46.
ASAP strain name: FB20665

fruA5

CGSC:6118

fruA3

CGSC:6126

fruA10

CGSC:8969

fruA0

CGSC:10763

fruA9

CGSC:12040

fruA4

CGSC:16086

ΔfruA723::kan

PMID:16738554[2]

CGSC:101018


edit table


Notes

A homologous recombination using various digestive enzymes allowed the mutant allele, fruA2 to be derived.The initial transformant colonies were selected in the presence of both thiostrepton and apramycin. FruA is specifically involved in fructose catabolism. A nonpolar fruA mutation impairs growth on fructose and also leads to a constitutive low expression of the fru operon. Uptake and phosphorylation of frustose to fructose-1-phosphate by fruA is necessary to relieve repression by fruR[5].

Genetic Resources

[back to top]


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

Resource Resource Type Source Notes/Reference

JW2154

Plasmid clone

Shigen

PMID:16769691[6]

Status:Clone OK

Primer 1:GCCAAAACGCTGCTGATTATTGA

Primer 2:CCgGCTGCTTTCGCTACTGCGTC

zbd-3104::Tn10

Linked marker

CAG12021 = CGSC7344[3]

est. P1 cotransduction: % [7]
Synonyms:zbc-3105::Tn10, zbd-3105::Tn10

napA722::Tn10

Linked marker

CAG12098 = CGSC7400[3]

est. P1 cotransduction: 15% [7]
Synonyms:zeg-722, zei-722::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:EG10336

EchoBASE (EcoliWiki Page)

EchoBASE:EB0332

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2167

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C2702

EcoGene (EcoliWiki Page)

EcoGene:EG10336

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:FRUA

CGSC (EcoliWiki Page)

CGSC:350

ASAP (EcoliWikiPage)

ASAP:ABE-0007172


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. ↑ Barrière, C et al. (2005) Fructose utilization in Lactococcus lactis as a model for low-GC gram-positive bacteria: its regulator, signal, and DNA-binding site. J. Bacteriol. 187 3752-61 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=fruA:Gene&oldid=978556"