thyA:Gene: Difference between revisions

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{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
 
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!{{table_heading_style}} |Standard name
!align=left {{table_heading_style}} |Standard name
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''thyA''  
''thyA''  
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!{{table_heading_style}} |Mnemonic
!align=left {{table_heading_style}} |Mnemonic
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|-
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!{{table_heading_style}} |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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===Notes===
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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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MG1655
MG1655
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{{GBrowseFastaLink|ecoli|NC_000913|2962383|2963177|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG11002 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=EG11002 EcoCyc Sequence Dump]  
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W3110
W3110
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{{GBrowseFastaLink|ecoli_W3110|AC_000091|2963017|2963811|FASTA Dump}}  
{{GBrowseFastaLink|ecoli_W3110|AC_000091|2963017|2963811|FASTA Dump}}  
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===Notes===
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====Notes====
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|[[PMID:16738554]]<ref name=PMID:16738554/>
[[PMID:16738554]]<ref name=PMID:16738554/>
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[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]
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===Notes===
===Notes===
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JW2795
JW2795
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[http://www.shigen.nig.ac.jp/ecoli/strain/askaCloneQueryAction.do?strainTypeId=9 Shigen]
[http://www.shigen.nig.ac.jp/ecoli/strain/askaCloneQueryAction.do?strainTypeId=9 Shigen]
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|[[PMID:16769691]]<ref name=PMID:16769691/>
[[PMID:16769691]]<ref name=PMID:16769691/>


Status:Clone OK
Status:Clone OK
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Primer 2:CCGATAGCCACCGGCGCTTTAAT  
Primer 2:CCGATAGCCACCGGCGCTTTAAT  
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[[recD:Gene|recD1901::Tn10]]
[[recD:Gene|recD1901::Tn10]]
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est. P1 cotransduction: 67% <ref name='LIB:Nichols_linked_Tn'/>  
est. P1 cotransduction: 67% <ref name='LIB:Nichols_linked_Tn'/>  
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[[speA:Gene|speA210::Tn10]]
[[speA:Gene|speA210::Tn10]]
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CAG12168 = [http://cgsc2.biology.yale.edu/Strain.php?ID=40110 CGSC7431]<ref name='LIB:cgsc'/>
CAG12168 = [http://cgsc2.biology.yale.edu/Strain.php?ID=40110 CGSC7431]<ref name='LIB:cgsc'/>
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est. P1 cotransduction: % <ref name='LIB:Nichols_linked_Tn'/>
est. P1 cotransduction: % <ref name='LIB:Nichols_linked_Tn'/>nnSynonyms:zgd-210::Tn10, zgf-210::Tn10


Synonyms:zgd-210::Tn10, zgf-210::Tn10
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[https://asap.ahabs.wisc.edu/asap/logon.php ASAP] ([[ASAP|EcoliWikiPage]])
[https://asap.ahabs.wisc.edu/asap/logon.php ASAP] ([[ASAP|EcoliWikiPage]])
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[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0009268&formSubmitReturn=1 ASAP:ABE-0009268]
[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0009268&formSubmitReturn=1 ASAP:ABE-0009268]
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<noinclude><protect>
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==References==
==References==
{{BacktoTop}}
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<references/>
<references/>
__NOTOC__
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Revision as of 21:26, 21 January 2009

{{#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=2961383..2964177&genome=ecoli&name=MG1655&trackset=0&width=300&.png

W3110

 

W3110: 2963811..2963017
gbrowse_img.php?coord=2962017..2964811&genome=ecoli_W3110&name=W3110&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]nnSynonyms: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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Name URL Comments
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References

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  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).


Categories

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