thrW:On One Page

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

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Standard Name

thrW

Gene Synonym(s)

ECK0245, b0244, JWR0008[1], JWR0008

Product Desc.


Product Synonyms(s)

tRNA-Thr(CGU) (Threonine tRNA2)[1]

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): thrW[2]

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.png pubmed.jpg   textpresso.jpg  

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Notes

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Gene

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Nomenclature

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

Standard name

thrW

Mnemonic

Threonine

Synonyms

ECK0245, b0244, JWR0008[1], JWR0008

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Notes

Location(s) and DNA Sequence

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<protect> 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

5.65 minutes 

MG1655: 262095..262170
<gbrowseImage> name=NC_000913:262095..262170 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 267363..267438
<gbrowseImage> name=NC_012967:267363..267438 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 262094..262169
<gbrowseImage> name=NC_012759:262094..262169 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 262095..262170
<gbrowseImage> name=NC_007779:262095..262170 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 236199..236274
<gbrowseImage> name=NC_010473:236199..236274 source=DH10B preset=GeneLocation </gbrowseImage>

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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 Strain Genomic Location Evidence Reference Notes
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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
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Notes

Genetic Interactions

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Interactor Interaction Allele Score(s) Reference(s) Accessions Notes
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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

Plasmid clone

Shigen

PMID:16769691

Status:

Primer 1:

Primer 2:

8G4

Kohara Phage

Genobase

PMID:3038334

proA81::Tn10

Linked marker

CAG18447 = CGSC7330[3]

est. P1 cotransduction: 93% [4]

lacI3042::Tn10

Linked marker

CAG18439 = CGSC7334[3]

est. P1 cotransduction: % [4]
Synonyms:lacI42::Tn10 nnnCAG18439 also carries lacZ118(0c) (CGSC).

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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

EcoCyc:EG30104

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG30104

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002546

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947202

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB4267

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000834

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Product(s)

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Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

tRNA-Thr(CGU) (Threonine tRNA2)

Synonyms

tRNA-Thr(CGU) (Threonine tRNA2)[1]

Product description


EC number (for enzymes)


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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status
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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type Partner Notes References Evidence
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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Reference/Source Notes
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Notes

Structure and Physical Properties

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<protect> Physical Properties

Type

tRNA

Sequence 
GCCGAUAUAG CUCAGUUGGU AGAGCAGCGC AUUCGUAAUG CGAAGGUCGU AGGUUCGACU
CCUAUUAUCG GCACCA
Mol. Wt

24644.66

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Domains/Motifs/Modification Sites See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type Residues Description Notes References
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<motif_map />

Image couresy of Rfam


Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=thrW taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type Source Notes/Reference
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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

EcoCyc:EG30104

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG30104

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002546

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB4267

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000834

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.


Cellular Levels

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See Help:Cellular levels

Molecule Organism or Strain Value Units Experimental Conditions Assay used Notes Reference(s)
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Notes

Transcription and Transcriptional Regulation

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<protect>

See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)

thrW

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Figure courtesy of RegulonDB

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Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:262075..262115 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

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Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name Mutation Phenotype Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b0244 (EcoliWiki Page)

NCBI GEO profiles for thrW

microarray

GenExpDB:b0244 (EcoliWiki Page)

Summary of data for thrW from multiple microarray studies

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Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name Resource Type Description Source Notes
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Notes

Accessions Related to thrW Expression

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc

EcoCyc:EG30104

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB4267

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0244

EcoGene

EcoGene:EG30104

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002546

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000834

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Evolution

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Homologs in Other Organisms

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<protect> See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

Organism Homologs (Statistics) Comments
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Do-It-Yourself Web Tools

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Notes

Families

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Organism Homologs (Statistics) Comments

Anopheles gambiae

  • ENSANGP00000021964 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000025082 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT2G39800 (score: 1.000; bootstrap: 100%)
  • AT3G55610 (score: 0.881)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000015703 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00023569 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00011938 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000012293 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000005241 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0037146 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA20377-PA (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000017112 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000265984 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000004139 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000006160 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Mus musculus

  • MGI:1888908 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Oryza gramene

  • Q58QF6 (score: 1.000; bootstrap: 100%)
  • Q53UC8 (score: 0.988)
  • Q60EM4 (score: 0.866)
  • Q6PW76 (score: 0.862)
  • O04226 (score: 0.862)
  • Q941T1 (score: 0.727)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000004870 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000020940 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YOR323C (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPAC8211 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000177909 (score: 1.000; bootstrap: 100%)
  • NEWSINFRUP00000136898 (score: 0.766)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00006945001 (score: 1.000; bootstrap: 100%)
  • GSTENP00025100001 (score: 0.737)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000041838 (score: 1.000; bootstrap: 99%)

From Inparanoid:20070104

Shigella flexneri

PROA

From SHIGELLACYC

E. coli O157

PROA

From ECOO157CYC

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Notes

Families

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<protect> See Help:Evolution_families for help entering or editing information in this section of EcoliWiki.

Database Accession Notes
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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. ↑ 1.0 1.1 1.2 1.3 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 CGSC: The Coli Genetics Stock Center
  4. ↑ 4.0 4.1 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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