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Thra thyroid hormone receptor alpha [ Mus musculus (house mouse) ]

Gene ID: 21833, updated on 21-Apr-2024

Summary

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Official Symbol
Thraprovided by MGI
Official Full Name
thyroid hormone receptor alphaprovided by MGI
Primary source
MGI:MGI:98742
See related
Ensembl:ENSMUSG00000058756 AllianceGenome:MGI:98742
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Rvr; Erba; Nr1a1; Thra1; Thra2; T3R[a]; T3Ralpha; c-erbA-1; c-erbAalpha; c-erbA-alpha; 6430529J03Rik
Summary
The protein encoded by this gene is one of several nuclear hormone receptors that bind thyroid hormones such as triiodothyronine and thyroxine with high affinity. The encoded protein is a transcription factor that can activate or repress transcription. Several alternatively spliced transcript variants of this gene have been described, but the full-length nature of some of these variants has not been determined. [provided by RefSeq, Sep 2015]
Expression
Broad expression in CNS E18 (RPKM 201.0), frontal lobe adult (RPKM 126.0) and 20 other tissues See more
Orthologs
human all
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Genomic context

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Location:
11 D; 11 62.58 cM
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (98631539..98659832)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (98740776..98769006)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene mediator complex subunit 24 Neighboring gene predicted gene, 22059 Neighboring gene predicted gene, 31252 Neighboring gene STARR-positive B cell enhancer ABC_E3017 Neighboring gene STARR-positive B cell enhancer ABC_E3018 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:98636882-98637065 Neighboring gene nuclear receptor subfamily 1, group D, member 1 Neighboring gene predicted gene, 31862 Neighboring gene STARR-positive B cell enhancer ABC_E468 Neighboring gene male specific lethal 1 Neighboring gene predicted gene 12359

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Morphological and Functional Colonic Defects Caused by a Mutated Thyroid Hormone Receptor α. Kim M, et al. Thyroid, 2023 Feb. PMID 36103385, Free PMC Article
  2. Ontogeny of TRα1 expression in the mouse testis and epididymis during postnatal development. Sarkar D, et al. Andrologia, 2022 Oct. PMID 35753757
  3. A disease-associated mutation in thyroid hormone receptor α1 causes hearing loss and sensory hair cell patterning defects in mice. Affortit C, et al. Sci Signal, 2022 Jun 14. PMID 35700264
  4. Thyroid hormone receptor alpha sumoylation modulates white adipose tissue stores. Liu YY, et al. Sci Rep, 2021 Dec 16. PMID 34916557, Free PMC Article
  5. Thyroid Hormone Receptor α Regulates Autophagy, Mitochondrial Biogenesis, and Fatty Acid Use in Skeletal Muscle. Zhou J, et al. Endocrinology, 2021 Aug 1. PMID 34086893, Free PMC Article

See all (331) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Thyroid hormone receptor Thra and Thrb knockout differentially affects osteoblast biology and thyroid hormone responsiveness in vitro.
    Title: Thyroid hormone receptor Thra and Thrb knockout differentially affects osteoblast biology and thyroid hormone responsiveness in vitro.
  2. Morphological and Functional Colonic Defects Caused by a Mutated Thyroid Hormone Receptor alpha.
    Title: Morphological and Functional Colonic Defects Caused by a Mutated Thyroid Hormone Receptor α.
  3. Regulation of the THRA gene, encoding the thyroid hormone nuclear receptor TRalpha1, in intestinal lesions.
    Title: Regulation of the THRA gene, encoding the thyroid hormone nuclear receptor TRα1, in intestinal lesions.
  4. Ontogeny of TRalpha1 expression in the mouse testis and epididymis during postnatal development.
    Title: Ontogeny of TRα1 expression in the mouse testis and epididymis during postnatal development.
  5. A disease-associated mutation in thyroid hormone receptor alpha1 causes hearing loss and sensory hair cell patterning defects in mice.
    Title: A disease-associated mutation in thyroid hormone receptor α1 causes hearing loss and sensory hair cell patterning defects in mice.
  6. Thyroid Hormone Receptor alpha1 Mutants Impair B Lymphocyte Development in a Mouse Model.
    Title: Thyroid Hormone Receptor α1 Mutants Impair B Lymphocyte Development in a Mouse Model.
  7. Generation and Characterization of a New Resistance to Thyroid Hormone Mouse Model with Thyroid Hormone Receptor Alpha Gene Mutation.
    Title: Generation and Characterization of a New Resistance to Thyroid Hormone Mouse Model with Thyroid Hormone Receptor Alpha Gene Mutation.
  8. Thyroid Hormone Receptor alpha Regulates Autophagy, Mitochondrial Biogenesis, and Fatty Acid Use in Skeletal Muscle.
    Title: Thyroid Hormone Receptor α Regulates Autophagy, Mitochondrial Biogenesis, and Fatty Acid Use in Skeletal Muscle.
  9. Exacerbated age-related hearing loss in mice lacking the p43 mitochondrial T3 receptor.
    Title: Exacerbated age-related hearing loss in mice lacking the p43 mitochondrial T3 receptor.
  10. Murine intestinal stem cells are highly sensitive to modulation of the T3/TRalpha1-dependent pathway.
    Title: Murine intestinal stem cells are highly sensitive to modulation of the T3/TRα1-dependent pathway.
Submit: New GeneRIF Correction See all GeneRIFs (124)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
NOT enables DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables DNA-binding transcription factor activity ISO
Inferred from Sequence Orthology
more info
  
enables DNA-binding transcription factor activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables TBP-class protein binding ISO
Inferred from Sequence Orthology
more info
  
enables chromatin DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables general transcription initiation factor binding ISO
Inferred from Sequence Orthology
more info
  
enables intronic transcription regulatory region sequence-specific DNA binding ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
more info
  
enables nuclear receptor activity TAS
Traceable Author Statement
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein domain specific binding ISO
Inferred from Sequence Orthology
more info
  
enables protein homodimerization activity ISO
Inferred from Sequence Orthology
more info
  
enables protein-containing complex binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein-containing complex binding ISO
Inferred from Sequence Orthology
more info
  
enables sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables single-stranded RNA binding ISO
Inferred from Sequence Orthology
more info
  
enables thyroid hormone binding ISO
Inferred from Sequence Orthology
more info
 PubMed 
enables transcription cis-regulatory region binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables transcription cis-regulatory region binding ISO
Inferred from Sequence Orthology
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within animal organ morphogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within cartilage condensation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in cell differentiation IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within erythrocyte differentiation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within female courtship behavior IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in hormone-mediated signaling pathway ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within learning or memory IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in mRNA transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in mRNA transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within negative regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of DNA-templated transcription initiation ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of RNA polymerase II transcription preinitiation complex assembly ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within ossification IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of canonical Wnt signaling pathway IC
Inferred by Curator
more info
 PubMed 
involved_in positive regulation of cold-induced thermogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within positive regulation of female receptivity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of thyroid hormone mediated signaling pathway IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of thyroid hormone mediated signaling pathway ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within regulation of heart contraction IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within regulation of lipid catabolic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within regulation of myeloid cell apoptotic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within regulation of thyroid hormone mediated signaling pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within response to cold IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in retinoic acid receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within thyroid gland development IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in thyroid hormone mediated signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within type I pneumocyte differentiation IGI
Inferred from Genetic Interaction
more info
 PubMed 
Component Evidence Code Pubs
part_of RNA polymerase II transcription regulator complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of RNA polymerase II transcription regulator complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of RNA polymerase II transcription regulator complex ISO
Inferred from Sequence Orthology
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
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
 PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
thyroid hormone receptor alpha
Names
TR alpha 1
TR alpha 2
nuclear receptor subfamily 1 group A member 1

NCBI Reference Sequences (RefSeq)

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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_001313983.1 → NP_001300912.1  thyroid hormone receptor alpha isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AL590963, BC046795, CJ117879
    Consensus CDS
    CCDS83893.1
    UniProtKB/Swiss-Prot
    A3KFN4, P10685, P15827, P16416, P37241, P63058, Q542U8, Q63107, Q63195, Q63196, Q80Y90, Q99146
    UniProtKB/TrEMBL
    A0A0R4J1R8
    Related
    ENSMUSP00000068281.6, ENSMUST00000064187.12
    Conserved Domains (2) summary
    cd06935
    Location:162 → 370
    NR_LBD_TR; The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors
    cd06961
    Location:52 → 138
    NR_DBD_TR; DNA-binding domain of thyroid hormone receptors (TRs) is composed of two C4-type zinc fingers

  2. NM_178060.4 → NP_835161.1  thyroid hormone receptor alpha isoform 2

    See identical proteins and their annotated locations for NP_835161.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AK078233, BB357897, CJ117879
    Consensus CDS
    CCDS25362.1
    UniProtKB/TrEMBL
    A0A0R4J1R8
    Related
    ENSMUSP00000099428.5, ENSMUST00000103139.11
    Conserved Domains (2) summary
    cd06935
    Location:162 → 404
    NR_LBD_TR; The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors
    cd06961
    Location:52 → 138
    NR_DBD_TR; DNA-binding domain of thyroid hormone receptors (TRs) is composed of two C4-type zinc fingers

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000077.7 Reference GRCm39 C57BL/6J

    Range
    98631539..98659832
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030245916.2 → XP_030101776.1  thyroid hormone receptor alpha isoform X1

    UniProtKB/TrEMBL
    A0A0R4J1R8
    Conserved Domains (2) summary
    cd06935
    Location:162 → 404
    NR_LBD_TR; The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors
    cd06961
    Location:52 → 138
    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
P63058.2 GenPept UniProtKB/Swiss-Prot:P63058

Gene LinkOut

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Chemical Information
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