LOCUS       NM_001313983            2491 bp    mRNA    linear   ROD 04-MAR-2025
DEFINITION  Mus musculus thyroid hormone receptor alpha (Thra), transcript
            variant 1, mRNA.
ACCESSION   NM_001313983
VERSION     NM_001313983.1
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 2491)
  AUTHORS   Edmondson,E., Kimura,T., Hwang,E., Kim,M., Warner,A., Zhu,Y.,
            Zhao,L., Yu,Y., Zhu,X., Hernandez,M., Kedei,N. and Cheng,S.Y.
  TITLE     TRalpha1 mutant suppresses KLF9 to cause endometrial metaplasia
            with ectopic IL-33 expression leading to uterine fibrosis and
            infertility
  JOURNAL   Sci Rep 15 (1), 3892 (2025)
   PUBMED   39890871
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2491)
  AUTHORS   Wenzek,C., Siemes,D., Hones,G.S., Pastille,E., Harting,N.,
            Kaiser,F., Moeller,L.C., Engel,D.R., Westendorf,A.M. and Fuhrer,D.
  TITLE     Lack of canonical thyroid hormone receptor alpha signaling changes
            regulatory T cell phenotype in female mice
  JOURNAL   iScience 27 (8), 110547 (2024)
   PUBMED   39175769
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2491)
  AUTHORS   Hones,G.S., Geist,D., Wenzek,C., Pfluger,P.T., Muller,T.D.,
            Aguilar-Pimentel,J.A., Amarie,O.V., Becker,L., Dragano,N.,
            Garrett,L., Holter,S.M., Rathkolb,B., Rozman,J., Spielmann,N.,
            Treise,I., Wolf,E., Wurst,W., Fuchs,H., Gailus-Durner,V., Hrabe de
            Angelis,M., Fuhrer,D. and Moeller,L.C.
  TITLE     Comparative Phenotyping of Mice Reveals Canonical and Noncanonical
            Physiological Functions of TRalpha and TRbeta
  JOURNAL   Endocrinology 165 (8) (2024)
   PUBMED   38889231
  REMARK    GeneRIF: Comparative Phenotyping of Mice Reveals Canonical and
            Noncanonical Physiological Functions of TRalpha and TRbeta.
REFERENCE   4  (bases 1 to 2491)
  AUTHORS   Geist,D., Hones,G.S., Grund,S.C., Pape,J., Siemes,D.,
            Spangenberg,P., Tolstik,E., Dorr,S., Spielmann,N., Fuchs,H.,
            Gailus-Durner,V., Hrabe de Angelis,M., Mittag,J., Engel,D.R.,
            Fuhrer,D., Lorenz,K. and Moeller,L.C.
  TITLE     Canonical and Noncanonical Contribution of Thyroid Hormone Receptor
            Isoforms Alpha and Beta to Cardiac Hypertrophy and Heart Rate in
            Male Mice
  JOURNAL   Thyroid 34 (6), 785-795 (2024)
   PUBMED   38757582
  REMARK    GeneRIF: Canonical and Noncanonical Contribution of Thyroid Hormone
            Receptor Isoforms Alpha and Beta to Cardiac Hypertrophy and Heart
            Rate in Male Mice.
REFERENCE   5  (bases 1 to 2491)
  AUTHORS   Sheng,Y., Zhu,X., Wei,L., Zou,Y., Qi,X., Shi,R., Xu,W., Wang,X.,
            Ding,G. and Duan,Y.
  TITLE     Aberrant expression of thyroidal hormone receptor alpha
            exasperating mitochondrial dysfunction induced sarcopenia in aged
            mice
  JOURNAL   Aging (Albany NY) 16 (8), 7141-7152 (2024)
   PUBMED   38643465
  REMARK    GeneRIF: Aberrant expression of thyroidal hormone receptor alpha
            exasperating mitochondrial dysfunction induced sarcopenia in aged
            mice.
REFERENCE   6  (bases 1 to 2491)
  AUTHORS   Stetler-Stevenson,W.G., Liotta,L.A. and Seldin,M.F.
  TITLE     Linkage analysis demonstrates that the Timp-2 locus is on mouse
            chromosome 11
  JOURNAL   Genomics 14 (3), 828-829 (1992)
   PUBMED   1427919
REFERENCE   7  (bases 1 to 2491)
  AUTHORS   Wilkie,T.M., Gilbert,D.J., Olsen,A.S., Chen,X.N., Amatruda,T.T.,
            Korenberg,J.R., Trask,B.J., de Jong,P., Reed,R.R., Simon,M.I. et
            al.
  TITLE     Evolution of the mammalian G protein alpha subunit multigene family
  JOURNAL   Nat Genet 1 (2), 85-91 (1992)
   PUBMED   1302014
  REMARK    Review article
REFERENCE   8  (bases 1 to 2491)
  AUTHORS   Karolyi,I.J., Guenet,J.L., Rey-Campos,J. and Camper,S.A.
  TITLE     The gene coding for variant hepatic nuclear factor 1 (Tcf-2), maps
            between the Edp-1 and Erba genes on mouse chromosome 11
  JOURNAL   Mamm Genome 3 (3), 184-185 (1992)
   PUBMED   1352161
REFERENCE   9  (bases 1 to 2491)
  AUTHORS   Oakey,R.J., Caron,M.G., Lefkowitz,R.J. and Seldin,M.F.
  TITLE     Genomic organization of adrenergic and serotonin receptors in the
            mouse: linkage mapping of sequence-related genes provides a method
            for examining mammalian chromosome evolution
  JOURNAL   Genomics 10 (2), 338-344 (1991)
   PUBMED   1676978
REFERENCE   10 (bases 1 to 2491)
  AUTHORS   Hammerberg,G. and Klein,J.
  TITLE     Linkage relationships of markers on chromosome 17 of the house
            mouse
  JOURNAL   Genet Res 26 (2), 203-211 (1975)
   PUBMED   1225760
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from CJ117879.1, BC046795.1 and
            AL590963.11.
            
            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].
            
            Transcript Variant: This variant (1) represents the longer
            transcript and encodes the longer isoform (1).
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC046795.1, SRR7345562.5068586.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-116               CJ117879.1         2-117
            117-419             BC046795.1         1-303
            420-420             AL590963.11        105090-105090       c
            421-2491            BC046795.1         305-2375
FEATURES             Location/Qualifiers
     source          1..2491
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="11"
                     /map="11 62.58 cM"
     gene            1..2491
                     /gene="Thra"
                     /gene_synonym="6430529J03Rik; c-erbA-1; c-erbA-alpha;
                     c-erbAalpha; Erba; Nr1a1; Rvr; T3Ralpha; T3R[a]; Thra1;
                     Thra2"
                     /note="thyroid hormone receptor alpha"
                     /db_xref="GeneID:21833"
                     /db_xref="MGI:MGI:98742"
     exon            1..222
                     /gene="Thra"
                     /gene_synonym="6430529J03Rik; c-erbA-1; c-erbA-alpha;
                     c-erbAalpha; Erba; Nr1a1; Rvr; T3Ralpha; T3R[a]; Thra1;
                     Thra2"
                     /inference="alignment:Splign:2.1.0"
     exon            223..571
                     /gene="Thra"
                     /gene_synonym="6430529J03Rik; c-erbA-1; c-erbA-alpha;
                     c-erbAalpha; Erba; Nr1a1; Rvr; T3Ralpha; T3R[a]; Thra1;
                     Thra2"
                     /inference="alignment:Splign:2.1.0"
     CDS             519..1997
                     /gene="Thra"
                     /gene_synonym="6430529J03Rik; c-erbA-1; c-erbA-alpha;
                     c-erbAalpha; Erba; Nr1a1; Rvr; T3Ralpha; T3R[a]; Thra1;
                     Thra2"
                     /note="isoform 1 is encoded by transcript variant 1;
                     nuclear receptor subfamily 1 group A member 1; TR alpha 2;
                     TR alpha 1"
                     /codon_start=1
                     /product="thyroid hormone receptor alpha isoform 1"
                     /protein_id="NP_001300912.1"
                     /db_xref="CCDS:CCDS83893.1"
                     /db_xref="GeneID:21833"
                     /db_xref="MGI:MGI:98742"
                     /translation="MEQKPSKVECGSDPEENSARSPDGKRKRKNGQCPLKSSMSGYIP
                     SYLDKDEQCVVCGDKATGYHYRCITCEGCKGFFRRTIQKNLHPTYSCKYDSCCVIDKI
                     TRNQCQLCRFKKCIAVGMAMDLVLDDSKRVAKRKLIEQNRERRRKEEMIRSLQQRPEP
                     TPEEWDLIHVATEAHRSTNAQGSHWKQRRKFLPDDIGQSPIVSMPDGDKVDLEAFSEF
                     TKIITPAITRVVDFAKKLPMFSELPCEDQIILLKGCCMEIMSLRAAVRYDPESDTLTL
                     SGEMAVKREQLKNGGLGVVSDAIFELGKSLSAFNLDDTEVALLQAVLLMSTDRSGLLC
                     VDKIEKSQEAYLLAFEHYVNHRKHNIPHFWPKLLMKEREVQSSILYKGAAAEGRPGGS
                     LGVHPEGQQLLGMHVVQGPQVRQLEQQLGEAGSLRGPVLQHQSPKSPQQRLLELLHRS
                     GILHSRAVCGEDDSSEASSLSSSSDTEDTEVCEDQAGKAASP"
     exon            572..639
                     /gene="Thra"
                     /gene_synonym="6430529J03Rik; c-erbA-1; c-erbA-alpha;
                     c-erbAalpha; Erba; Nr1a1; Rvr; T3Ralpha; T3R[a]; Thra1;
                     Thra2"
                     /inference="alignment:Splign:2.1.0"
     exon            640..740
                     /gene="Thra"
                     /gene_synonym="6430529J03Rik; c-erbA-1; c-erbA-alpha;
                     c-erbAalpha; Erba; Nr1a1; Rvr; T3Ralpha; T3R[a]; Thra1;
                     Thra2"
                     /inference="alignment:Splign:2.1.0"
     exon            741..888
                     /gene="Thra"
                     /gene_synonym="6430529J03Rik; c-erbA-1; c-erbA-alpha;
                     c-erbAalpha; Erba; Nr1a1; Rvr; T3Ralpha; T3R[a]; Thra1;
                     Thra2"
                     /inference="alignment:Splign:2.1.0"
     exon            889..1094
                     /gene="Thra"
                     /gene_synonym="6430529J03Rik; c-erbA-1; c-erbA-alpha;
                     c-erbAalpha; Erba; Nr1a1; Rvr; T3Ralpha; T3R[a]; Thra1;
                     Thra2"
                     /inference="alignment:Splign:2.1.0"
     exon            1095..1241
                     /gene="Thra"
                     /gene_synonym="6430529J03Rik; c-erbA-1; c-erbA-alpha;
                     c-erbAalpha; Erba; Nr1a1; Rvr; T3Ralpha; T3R[a]; Thra1;
                     Thra2"
                     /inference="alignment:Splign:2.1.0"
     exon            1242..1500
                     /gene="Thra"
                     /gene_synonym="6430529J03Rik; c-erbA-1; c-erbA-alpha;
                     c-erbAalpha; Erba; Nr1a1; Rvr; T3Ralpha; T3R[a]; Thra1;
                     Thra2"
                     /inference="alignment:Splign:2.1.0"
     exon            1501..1628
                     /gene="Thra"
                     /gene_synonym="6430529J03Rik; c-erbA-1; c-erbA-alpha;
                     c-erbAalpha; Erba; Nr1a1; Rvr; T3Ralpha; T3R[a]; Thra1;
                     Thra2"
                     /inference="alignment:Splign:2.1.0"
     exon            1629..2478
                     /gene="Thra"
                     /gene_synonym="6430529J03Rik; c-erbA-1; c-erbA-alpha;
                     c-erbAalpha; Erba; Nr1a1; Rvr; T3Ralpha; T3R[a]; Thra1;
                     Thra2"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2456..2461
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Thra"
                     /gene_synonym="6430529J03Rik; c-erbA-1; c-erbA-alpha;
                     c-erbAalpha; Erba; Nr1a1; Rvr; T3Ralpha; T3R[a]; Thra1;
                     Thra2"
                     /note="hexamer: CATAAA"
     polyA_site      2478
                     /gene="Thra"
                     /gene_synonym="6430529J03Rik; c-erbA-1; c-erbA-alpha;
                     c-erbAalpha; Erba; Nr1a1; Rvr; T3Ralpha; T3R[a]; Thra1;
                     Thra2"
                     /note="major polyA site"
ORIGIN      
        1 ggagcggggc gggggaggga ggagccagag cggccgccgc ctctgccgga ggagccgcgg
       61 ggccgccaca ctcgcccccc gcccccccgc gctcactcgc actcacaccc cggcgctgga
      121 ggcgggcggc ccgggcccca ccggcccccc atggacgccc ccggcacggg gcgctgagac
      181 ccccgcgtcg ttgctcagct cggaccagcg cgccaagccg aggtatctcc agacaggaca
      241 agtctctgaa gacttcccag cccctaaccc agtacctttg accagcttgc ccctagctct
      301 cccacctgcc actccctggc ccctcccacc accagccctc ccattttttt ggggagcagg
      361 gcatggtgtg aaaggctgag tactgagggg gttactatgg gtgctgtgcc ctagggcctg
      421 ggtggcgggg ggtgggtggc ctgtgggcgt gggggggcca gtgtgcccac cccagtctct
      481 tggcgtgctg gagagcatcc tggatggaat tgaagtgaat ggaacagaag ccaagcaagg
      541 tggagtgtgg gtcagaccca gaggagaaca gtgccaggtc accagatgga aagcgaaaaa
      601 gaaagaacgg ccaatgtccc ctgaaaagca gcatgtcagg gtatatccct agttacctgg
      661 acaaagacga gcagtgtgtc gtgtgtgggg acaaggccac cggttatcac taccgctgta
      721 tcacttgtga gggctgcaag ggcttctttc gccgcacaat ccagaagaat ctccatccca
      781 cctattcctg caagtatgac agctgctgtg tcatcgacaa gatcacccgg aatcagtgcc
      841 agctgtgccg cttcaagaag tgcattgctg tgggcatggc catggacttg gttctagatg
      901 attcgaagcg ggtggccaaa cgcaagctga ttgagcagaa ccgggagagg aggcgaaagg
      961 aggagatgat tcgctcactg cagcagcgac cagagcccac tcctgaagag tgggacctga
     1021 tacatgttgc tacagaggcc catcgcagca ctaacgccca gggcagccat tggaaacaga
     1081 ggcgaaaatt cctgccggat gacattggcc agtcacctat tgtctccatg ccggacggag
     1141 acaaggtaga cctagaggcc ttcagcgagt ttaccaagat catcaccccg gccatcacgc
     1201 gcgtggtgga ctttgccaaa aaactgccca tgttctccga gctgccttgc gaagaccaga
     1261 tcatcctcct gaagggctgc tgcatggaga tcatgtccct gcgggcagct gtccgctacg
     1321 accctgagag tgacaccctg accctgagtg gggagatggc ggttaagcgg gaacagctca
     1381 agaatggtgg cttgggtgtg gtctctgacg ccatctttga actgggcaag tcactctctg
     1441 cctttaacct ggatgacacg gaagtggctc tgctgcaggc tgtgctgcta atgtcaacag
     1501 accgctccgg cctgctgtgc gtggacaaga tcgagaagag tcaggaggcc tacctgctgg
     1561 cgtttgagca ctacgtcaac caccgcaaac acaacattcc gcacttctgg cccaagctgc
     1621 tgatgaagga gagagaagtg cagagttcga ttctgtacaa gggggcagcg gcagaaggcc
     1681 ggccgggcgg gtcactgggc gtccacccgg aaggacagca gcttctcgga atgcatgttg
     1741 ttcagggtcc gcaggtccgg cagcttgagc agcagcttgg tgaagcggga agtctccgag
     1801 ggccggttct tcagcaccag agcccgaaga gcccgcagca gcgtctcctg gagctgctcc
     1861 accgaagcgg aattctccat tcccgagcgg tctgtgggga agacgacagc agtgaggcga
     1921 gctccctgag ctcctcctct gacacggagg acacggaggt ctgcgaggac caggcaggca
     1981 aggcagcctc tccctgaggc ccctcggagg gcaacgggaa aggagaagga gggcgctact
     2041 ccttctccct ggggggcctc tgccctagag cggggccacg cccacacgct gggagcatgg
     2101 ccacaggctg gccacctccc actcctcgag cccaccctcc taccctgagc atgccactcg
     2161 tggccaagct cccttgttat ttgctctgta gttccctctg cctgggatgc ccttccccct
     2221 ctctatgcct ggcagttatc ttgtcccttt gaggccccac atcaagtgtc acctccttcc
     2281 ccagctctcc cgggcagaaa tagtcgtctg tgcttacttg gttcatgctt cttgtgtgac
     2341 acttctcgct gttttataat tagtcgggca tgagtctgtt tcccaagcta gactgtgtct
     2401 gaatcatgtc tgtagcccag tgcccagtgc tgggcctggc atagagtagg ttctccataa
     2461 aaggtatgtt gaattgaaaa aaaaaaaaaa a
//
