ileX:On One Page

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

Quickview

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Standard Name

ileX

Gene Synonym(s)

ECK3059, b3069, JWR0069[1], JWR0069

Product Desc.


Product Synonyms(s)

tRNA-Ile(CAU) (Isoleucine tRNA2)[1]

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): ileX[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

ileX

Mnemonic

Isoleucine

Synonyms

ECK3059, b3069, JWR0069[1], JWR0069

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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

69.26 minutes 

MG1655: 3213620..3213695
<gbrowseImage> name=NC_000913:3213620..3213695 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3148415..3148490
<gbrowseImage> name=NC_012967:3148415..3148490 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3100768..3100843
<gbrowseImage> name=NC_012759:3100768..3100843 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3214254..3214329
<gbrowseImage> name=NC_007779:3214254..3214329 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3311365..3311440
<gbrowseImage> name=NC_010473:3311365..3311440 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:

19F2

Kohara Phage

Genobase

PMID:3038334

17E4

Kohara Phage

Genobase

PMID:3038334

tolC210::Tn10

Linked marker

CAG12184 = CGSC7437[3]

est. P1 cotransduction: 24% [4]

aer-3075::Tn10

Linked marker

CAG12152 = CGSC7438[3]

est. P1 cotransduction: 95% [4]
Synonyms:zgh-3075::Tn10, zgj-3075::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

EcoCyc:EG30046

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG30046

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002488

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947558

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB4209

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010076

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-Ile(CAU) (Isoleucine tRNA2)

Synonyms

tRNA-Ile(CAU) (Isoleucine 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

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
GGCCCCUUAG CUCAGUGGUU AGAGCAGGCG ACUCAUAAUC GCUUGGUCGC UGGUUCAAGU
CCAGCAGGGG CCACCA
Mol. Wt

24649.66


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

<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=ileX 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:EG30046

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG30046

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002488

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB4209

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010076

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)

Notes

Transcription and Transcriptional Regulation

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

Transcription unit(s)

ileX

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_000913:3213600..3213640 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


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

Type Reference Notes

microarray

GEO Profiles:b3069 (EcoliWiki Page)

NCBI GEO profiles for ileX

microarray

GenExpDB:b3069 (EcoliWiki Page)

Summary of data for ileX from multiple microarray studies


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

Resource Name Resource Type Description Source Notes

GFP Fusion

Intergenic region (3213026..3213286) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ12; Well:E4[5]

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Notes

Accessions Related to ileX Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG30046

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB4209

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3069

EcoGene

EcoGene:EG30046

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002488

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010076

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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Database Accession Notes

PFAM (EcoliWiki Page)

PFAM:PF03167

edit table

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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).
  5. Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

Categories

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