U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

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

    Gene ID: 30670, updated on 2-Nov-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, Nov 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

    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.