thyA:Gene: Difference between revisions

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Update TableEdit tables.
Fixing REL gene coord display.
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!align=left |Standard name
!align=left {{table_heading_style}} |Standard name
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''thyA''  
''thyA''  
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!align=left |Mnemonic
!align=left {{table_heading_style}} |Mnemonic
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|-
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!align=left |Synonyms
!align=left {{table_heading_style}} |Synonyms
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''ECK2823, b2827, JW2795''<ref name='LIB:Riley_2006'/>
''ECK2823, b2827, JW2795''<ref name='LIB:Riley_2006'/>
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{|  id="C46a9e739b11cc"  class=" tableEdit Gene_location_table"   
{|  id="C46a9e739b11cc"  class=" tableEdit Gene_location_table"   
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!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
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NC_012967: 2858981..2859775<br />{{GBrowseFigureByCoord|2858981|2859775|REL606|NC_012967}}
NC_012967: 2859775..2858981<br />{{GBrowseFigureByCoord|2858981|2859775|REL606|NC_012967}}
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{{GBrowseLink|REL606|NC_012967|2858981|2859775|GBrowse (REL606)}}
{{GBrowseLink|REL606|NC_012967|2858981|2859775|GBrowse (REL606)}}
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{|  id="N46a9e73a6d387"  class=" tableEdit Gene_sequence_features_table"   
{|  id="N46a9e73a6d387"  class=" tableEdit Gene_sequence_features_table"   
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!|Feature type!!Location!!Description
!|Feature type!!Location!!Description


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{|   id="L46a9e73ab4982"  class=" tableEdit Gene_allele_table"   
{| {{Prettytable}}  id="L46a9e73ab4982"  class=" tableEdit Gene_allele_table"   
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!|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
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{|  id="S46a9e73b710e1"  class=" tableEdit Gene_resource_table"   
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!|Resource!!Resource Type!!Source!!Notes/Reference
!|Resource!!Resource Type!!Source!!Notes/Reference
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{|  id="U46a9e73c15556"  class=" tableEdit Gene_accessions_table"   
{|  id="U46a9e73c15556"  class=" tableEdit Gene_accessions_table"   
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!|Database!!Accession!!Notes
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!|Name!!URL!!Comments
!|Name!!URL!!Comments


Revision as of 20:52, 21 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

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

Standard name

thyA

Mnemonic
Synonyms

ECK2823, b2827, JW2795[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

63.85 minutes 

MG1655: 2963177..2962383
gbrowse_img.php?coord=2962383..2963177&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 2859775..2858981
gbrowse_img.php?coord=2858981..2859775&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 2963811..2963017
gbrowse_img.php?coord=2963017..2963811&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 3057047..3056253
gbrowse_img.php?coord=3056253..3057047&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 Location Description
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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

ΔthyA (Keio:JW2795)

deletion

deletion

PMID:16738554[2]

Shigen

thyA751

CGSC:4790

thyA25

CGSC:4870

thyA715

CGSC:5108

thyA36

CGSC:5214

thyA6

CGSC:5229

thyA47

CGSC:5247

thyA52

CGSC:5930

thyA12

CGSC:6324

thyA704

CGSC:6454

thyA3

CGSC:6456

thyA81

CGSC:6550

thyA82

CGSC:6553

thyA56

CGSC:6624

thyA117

CGSC:6693

thyA61

CGSC:6774

thyA144

CGSC:6965

thyA54

CGSC:6984

thyA42

CGSC:7046

thyA748::Tn10

CGSC:7146

thyA147

CGSC:7435

thyA148

CGSC:7441

thyA45

CGSC:7744

thyA702

CGSC:7782

thyA55

CGSC:8013

thyA43

CGSC:8047

thyA11

CGSC:8289

thyA24

CGSC:8317

thyA305

CGSC:8415

thyA14

CGSC:8453

thyA33

CGSC:8524

thyA114(Stable)::Mu

CGSC:8530

thyA20

CGSC:8680

thyA707

CGSC:8791

thyA111

CGSC:8970

thyA16

CGSC:9232

thyA15

CGSC:9246

thyA705

CGSC:9518

thyA48

CGSC:9636

thyA714

CGSC:9655

thyA95

CGSC:9679

thyA44

CGSC:9739

thyA710

CGSC:9829

thyA0

CGSC:9977

thyA299

CGSC:10047

thyA59

CGSC:10129

thyA746

CGSC:10313

ΔthyA752

CGSC:10675

thyA719

CGSC:10685

thyA755

CGSC:10854

thyA756

CGSC:10867

ΔthyA57

CGSC:10899

thyA758

CGSC:10937

thyA38

CGSC:11040

thyA26

CGSC:11309

thyA41

CGSC:11313

thyA23

CGSC:11395

thyA325

CGSC:11630

thyA46

CGSC:11771

thyA2

CGSC:13565

thyA18

CGSC:13591

thyA34

CGSC:13776

thyA10

CGSC:13932

thyA39

CGSC:13966

thyA29

CGSC:14002

thyA27

CGSC:14007

thyA53

CGSC:14054

thyA28

CGSC:14170

thyA30

CGSC:14178

thyA31

CGSC:14184

thyA49

CGSC:14623

thyA709

CGSC:14678

thyA17

CGSC:16221

thyA51

CGSC:16360

thyA321

CGSC:16724

thyA58

CGSC:16920

thyA50

CGSC:16936

thyA40

CGSC:17076

thyA333

CGSC:19205

thyA9999(ts)::Mud(Ap,lac)

temperature sensitive

CGSC:19260

thyA149

CGSC:19317

thyA101

CGSC:19651

thyA9

CGSC:23655

thyA326

CGSC:27048

thyA753

CGSC:29474

thyA281

CGSC:66486

thyA294

CGSC:72642

thyA119

CGSC:74742

thyA760

CGSC:79050

thyA749

CGSC:80478

thyA750

CGSC:80480


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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

JW2795

Plasmid clone

Shigen

PMID:16769691[3]

Status:Clone OK

Primer 1:GCCAAACAGTATTTAGAACTGAT

Primer 2:CCGATAGCCACCGGCGCTTTAAT

recD1901::Tn10

Linked marker

CAG12135 = CGSC7429[4]

est. P1 cotransduction: 67% [5]

speA210::Tn10

Linked marker

CAG12168 = CGSC7431[4]

est. P1 cotransduction: % [5]
Synonyms:zgd-210::Tn10, zgf-210::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:EG11002

EchoBASE (EcoliWiki Page)

EchoBASE:EB0995

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2827

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C3422

EcoGene (EcoliWiki Page)

EcoGene:EG11002

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:THYA

CGSC (EcoliWiki Page)

CGSC:104

ASAP (EcoliWikiPage)

ASAP:ABE-0009268


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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. ↑ 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. ↑ 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
  4. ↑ 4.0 4.1 CGSC: The Coli Genetics Stock Center
  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).

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