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alaU: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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Gene Name

alaU (synonyms: ECK3263, b3276, JWR0077, talD)[1]

Product(s)

tRNA-Ala(UGC) (Alanine tRNA 1B)[1]: tRNA-Ala(UGC) (Alanine tRNA 1B) product

Description


Knock-Out Phenotype
Regulation/Expression

transcription unit(s): rrsD-ileU-alaU-rrlD-rrfD-thrV-rrfF[2], rrnD

Regulation/Activity
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Notes

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Gene

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Nomenclature

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Standard name

alaU

Mnemonic
Synonyms

ECK3263, b3276, JWR0077, talD[1]

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Notes

Location(s) and DNA Sequence

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StrainMap locationGenome coordinatesGenome browsersSequence links

MG1655

73.82 minutes, 73.82 minutes 

MG1655: 3425055..3424980
gbrowse_img.php?coord=3423980..3426055&genome=ecoli&name=MG1655&trackset=0&width=300&.png

W3110

 

W3110: 4213383..4213458
gbrowse_img.php?coord=4212383..4214458&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

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Notes

Sequence Features

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Feature typeLocationDescription
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Notes

Alleles and Phenotypes

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AlleleNt change(s)AA change(s)Phenotype: TypePhenotype: DescriptionReferenceAvailabilityComments
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Notes

Genetic Resources

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ResourceResource TypeSourceNotes/Reference

Plasmid clone

Shigen

PMID:16769691[3]

Status:

Primer 1:

Primer 2:

acrF3083::Tn10

Linked marker

CAG12075 = CGSC7447[4]

est. P1 cotransduction: 71% [5]

Synonyms:zhd-3083::Tn10, zhe-3083::Tn10

smg-3082::Tn10

Linked marker

CAG12071 = CGSC7444[4]

est. P1 cotransduction: 88% [5]

Synonyms:zhb-3082::Tn10, zhd-3082::Tn10

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Notes

Accessions in Other Databases

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DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG30009

EchoBASE (EcoliWiki Page)

EchoBASE:EB4172

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3276

EcoGene (EcoliWiki Page)

EcoGene:EG30009

CGSC (EcoliWiki Page)

CGSC:1037

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Notes

Links

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NameURLComments
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Categories

Product(s)

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Nomenclature

Standard name

tRNA-Ala(UGC) (Alanine tRNA 1B)

Synonyms

tRNA-Ala(UGC) (Alanine tRNA 1B)[1]

Product description


EC number (for enzymes)
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Notes

Function

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

QualifierGO IDGO term nameReference(s)Evidence Codewith/fromAspectNotesStatus
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Interactions

Partner TypePartnerNotesReferences
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Notes

Localization

CompartmentDescriptionEvidenceNotes
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Notes

Structure and Physical Properties

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Physical Properties

Sequence

at EcoCyc

Mol. Wt
pI
Extinction coefficient


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Domains/Motifs/Modification Sites

TypeResiduesDescriptionNotes
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Structure

Structures
  • No results found.
Models

View models at:

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Notes

Gene Product Resources

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Resource typeSourceNotes/Reference
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Notes

Accessions in Other Databases

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DatabaseAccessionNotes
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Notes

Links

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NameURLComments
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Categories

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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.

Transcription and Transcriptional Regulation

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Transcription unit(s)

rrsD-ileU-alaU-rrlD-rrfD-thrV-rrfF

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Figure courtesy of RegulonDB
Figure courtesy of RegulonDB

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

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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gbrowse_img.php?coord=3425035..3425075&genome=ecoli&name=MG1655&trackset=Genes_unlabeled+DNA_unlabeled+flip&width=400&.png
This picture shows the sequence around the N-terminus.

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

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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Mutations Affecting Expression

Allele NameMutationPhenotypeReference
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Expression Studies

TypeReferenceNotes

microarray

GenExpDB:b3276 (EcoliWiki Page)

Summary of data for alaU from multiple microarray studies

microarray

GEO Profiles:b3276 (EcoliWiki Page)

NCBI GEO profiles for alaU

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Expression Resources

Resource NameResource TypeDescriptionSourceNotes
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Notes

Accessions Related to alaU Expression

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DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG30009

EchoBASE (EcoliWiki Page)

EchoBASE:EB4172

EcoliGenExpDB (EcoliWiki Page)

GenExpDB:b3276

EcoGene (EcoliWiki Page)

EcoGene:EG30009

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Notes

Links

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NameURLComments
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Categories

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Evolution

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Homologs in Other Organisms

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Do-It-Yourself Web Tools

Notes

Families

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DatabaseAccessionNotes

PFAM (EcoliWiki Page)

PFAM:PF00005

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Notes

Links

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NameURLComments
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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. ↑ 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 EcoliWiki page
  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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