U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

thraa thyroid hormone receptor alpha a [ Danio rerio (zebrafish) ]

Gene ID: 30670, updated on 9-Dec-2024

Summary

Go to the top of the page Help
Official Symbol
thraaprovided by ZNC
Official Full Name
thyroid hormone receptor alpha aprovided by ZNC
Primary source
ZFIN:ZDB-GENE-990415-263
See related
Ensembl:ENSDARG00000000151 AllianceGenome:ZFIN:ZDB-GENE-990415-263
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
tra; thr1; thra; tra1; nr1a1; thral; TR[a]1; wu:fb59g07
Summary
Enables nuclear receptor activity. Involved in negative regulation of transcription by RNA polymerase II and positive regulation of transcription by RNA polymerase II. Acts upstream of or within several processes, including positive regulation of sarcomere organization; thyroid hormone receptor signaling pathway; and ventricular system development. Located in nucleus. Is expressed in several structures, including blastodisc; muscle; nervous system; optic cup; and pleuroperitoneal region. Used to study hypothyroidism. Human ortholog(s) of this gene implicated in congenital nongoitrous hypothyroidism 6 and renal cell carcinoma. Orthologous to human THRA (thyroid hormone receptor alpha). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs
all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See thraa in Genome Data Viewer
Location:
chromosome: 3
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 3 NC_007114.7 (34692747..34753581, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 3 NC_007114.6 (34567762..34624637, complement)

Chromosome 3 - NC_007114.7Genomic Context describing neighboring genes Neighboring gene tachykinin precursor 4 Neighboring gene distal-less homeobox 4a Neighboring gene dual specificity phosphatase 3b Neighboring gene N-ethylmaleimide-sensitive factor a Neighboring gene proteasome 26S subunit, non-ATPase 11a

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

Go to the top of the pageHelp

Related articles in PubMed

  1. Molecular cloning and expression of thyroid hormone receptor alpha during salmonid development. Jones I, et al. Gen Comp Endocrinol, 2002 Feb 1. PMID 11884068
  2. Influence of triphenyltin on morphologic abnormalities and the thyroid hormone system in early-stage zebrafish (Danio rerio). Horie Y, et al. Comp Biochem Physiol C Toxicol Pharmacol, 2021 Apr. PMID 33285321
  3. Phenylthiourea specifically reduces zebrafish eye size. Li Z, et al. PLoS One, 2012. PMID 22761952, Free PMC Article
  4. Generation of fluorescent zebrafish to study endocrine disruption and potential crosstalk between thyroid hormone and corticosteroids. Terrien X, et al. Aquat Toxicol, 2011 Sep. PMID 21684237
  5. Type 2 iodothyronine deiodinase is essential for thyroid hormone-dependent embryonic development and pigmentation in zebrafish. Walpita CN, et al. Endocrinology, 2009 Jan. PMID 18801906

See all (167) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Thyroid Hormone Receptor alpha Mutations Cause Heart Defects in Zebrafish.
    Title: Thyroid Hormone Receptor α Mutations Cause Heart Defects in Zebrafish.
  2. Data provide evidence that zebrafish represents a valid model to study in vivo the thyroid hormone (TH) action, and the molecular mechanisms underlying the two syndromes of TH resistance, RTHa and RTHb.
    Title: Patterns of thyroid hormone receptor expression in zebrafish and generation of a novel model of resistance to thyroid hormone action.
  3. zebrafish uses both alternative splicing and differential expression of TRalpha genes to diversify the cellular response to thyroid hormones.
    Title: An F-domain introduced by alternative splicing regulates activity of the zebrafish thyroid hormone receptor alpha.
Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables DNA-binding transcription factor activity IEA
Inferred from Electronic Annotation
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables nuclear receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables nuclear receptor activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables nuclear receptor activity IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in cell differentiation IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within heart development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
  
involved_in negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in negative regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
  
acts_upstream_of_or_within neural crest cell development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
  
acts_upstream_of_or_within positive regulation of sarcomere organization IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
  
acts_upstream_of_or_within regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within response to hormone IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in retinoic acid receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in thyroid hormone receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within thyroid hormone receptor signaling pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within ventricular system development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
part_of RNA polymerase II transcription regulator complex IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

Go to the top of the page Help
Preferred Names
thyroid hormone receptor alpha-A
Names
NR1A1-A
TRalpha-1
c-erbA
nr1a1a
nuclear receptor subfamily 1 group A member 1-A
thyroid hormone receptor alpha-1
zTRalpha-A

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_131396.1 → NP_571471.1  thyroid hormone receptor alpha-A

    See identical proteins and their annotated locations for NP_571471.1

    Status: PROVISIONAL

    Source sequence(s)
    U54796
    UniProtKB/Swiss-Prot
    A0ST47, Q4V9Q5, Q98867
    UniProtKB/TrEMBL
    B2GQG7
    Related
    ENSDARP00000000160.9, ENSDART00000000160.10
    Conserved Domains (2) summary
    cd06935
    Location:168 → 407
    NR_LBD_TR; The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors
    cd06961
    Location:56 → 142
    NR_DBD_TR; DNA-binding domain of thyroid hormone receptors (TRs) is composed of two C4-type zinc fingers

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007114.7 Reference GRCz11 Primary Assembly

    Range
    34692747..34753581 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068215743.1 → XP_068071844.1  thyroid hormone receptor alpha-A isoform X1

    UniProtKB/Swiss-Prot
    A0ST47, Q4V9Q5, Q98867
    UniProtKB/TrEMBL
    B2GQG7

  2. XM_005163985.5 → XP_005164042.1  thyroid hormone receptor alpha-A isoform X2

    UniProtKB/TrEMBL
    A0A8M2BB68
    Conserved Domains (2) summary
    cd06935
    Location:162 → 401
    NR_LBD_TR; The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors
    cd06961
    Location:50 → 136
    NR_DBD_TR; DNA-binding domain of thyroid hormone receptors (TRs) is composed of two C4-type zinc fingers

  3. XM_009299516.4 → XP_009297791.1  thyroid hormone receptor alpha-A isoform X3

    UniProtKB/TrEMBL
    A0A8M3B8B2
    Related
    ENSDARP00000125835.1, ENSDART00000151127.3
    Conserved Domains (2) summary
    cd06935
    Location:162 → 401
    NR_LBD_TR; The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors
    cd06961
    Location:50 → 136
    NR_DBD_TR; DNA-binding domain of thyroid hormone receptors (TRs) is composed of two C4-type zinc fingers
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q98867.1 GenPept UniProtKB/Swiss-Prot:Q98867

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.