LOCUS       NM_000964               3275 bp    mRNA    linear   PRI 03-FEB-2025
DEFINITION  Homo sapiens retinoic acid receptor alpha (RARA), transcript
            variant 1, mRNA.
ACCESSION   NM_000964
VERSION     NM_000964.4
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 3275)
  AUTHORS   Xu,Q., Peng,Y., Sun,S., Zhang,Y., Shi,T., Kuang,X., Wu,Y. and
            Zhu,H.H.
  TITLE     Acute promyelocytic leukemia with TTMV::RARA fusion potentially
            responds to all-trans retinoic acid/arsenic trioxide treatment
  JOURNAL   Haematologica (2025) In press
   PUBMED   39844766
  REMARK    Publication Status: Available-Online prior to print
REFERENCE   2  (bases 1 to 3275)
  AUTHORS   Katerndahl,C.D.S., Rogers,O.R.S., Day,R.B., Xu,Z., Helton,N.M.,
            Ramakrishnan,S.M., Miller,C.A. and Ley,T.J.
  TITLE     PML::RARA and GATA2 proteins interact via DNA templates to induce
            aberrant self-renewal in mouse and human hematopoietic cells
  JOURNAL   Proc Natl Acad Sci U S A 121 (18), e2317690121 (2024)
   PUBMED   38648485
  REMARK    GeneRIF: PML::RARA and GATA2 proteins interact via DNA templates to
            induce aberrant self-renewal in mouse and human hematopoietic
            cells.
REFERENCE   3  (bases 1 to 3275)
  AUTHORS   Catalano,A., Dawson,M.A., Somana,K., Opat,S., Schwarer,A.,
            Campbell,L.J. and Iland,H.
  TITLE     The PRKAR1A gene is fused to RARA in a new variant acute
            promyelocytic leukemia
  JOURNAL   Blood 110 (12), 4073-4076 (2007)
   PUBMED   17712046
REFERENCE   4  (bases 1 to 3275)
  AUTHORS   Wells,R.A., Catzavelos,C. and Kamel-Reid,S.
  TITLE     Fusion of retinoic acid receptor alpha to NuMA, the nuclear mitotic
            apparatus protein, by a variant translocation in acute
            promyelocytic leukaemia
  JOURNAL   Nat Genet 17 (1), 109-113 (1997)
   PUBMED   9288109
REFERENCE   5  (bases 1 to 3275)
  AUTHORS   Chen,Z., Guidez,F., Rousselot,P., Agadir,A., Chen,S.J., Wang,Z.Y.,
            Degos,L., Zelent,A., Waxman,S. and Chomienne,C.
  TITLE     PLZF-RAR alpha fusion proteins generated from the variant
            t(11;17)(q23;q21) translocation in acute promyelocytic leukemia
            inhibit ligand-dependent transactivation of wild-type retinoic acid
            receptors
  JOURNAL   Proc Natl Acad Sci U S A 91 (3), 1178-1182 (1994)
   PUBMED   8302850
REFERENCE   6  (bases 1 to 3275)
  AUTHORS   Baniahmad,A., Kohne,A.C. and Renkawitz,R.
  TITLE     A transferable silencing domain is present in the thyroid hormone
            receptor, in the v-erbA oncogene product and in the retinoic acid
            receptor
  JOURNAL   EMBO J 11 (3), 1015-1023 (1992)
   PUBMED   1347744
REFERENCE   7  (bases 1 to 3275)
  AUTHORS   Kastner,P., Perez,A., Lutz,Y., Rochette-Egly,C., Gaub,M.P.,
            Durand,B., Lanotte,M., Berger,R. and Chambon,P.
  TITLE     Structure, localization and transcriptional properties of two
            classes of retinoic acid receptor alpha fusion proteins in acute
            promyelocytic leukemia (APL): structural similarities with a new
            family of oncoproteins
  JOURNAL   EMBO J 11 (2), 629-642 (1992)
   PUBMED   1311253
REFERENCE   8  (bases 1 to 3275)
  AUTHORS   Kliewer,S.A., Umesono,K., Mangelsdorf,D.J. and Evans,R.M.
  TITLE     Retinoid X receptor interacts with nuclear receptors in retinoic
            acid, thyroid hormone and vitamin D3 signalling
  JOURNAL   Nature 355 (6359), 446-449 (1992)
   PUBMED   1310351
REFERENCE   9  (bases 1 to 3275)
  AUTHORS   de The,H., Lavau,C., Marchio,A., Chomienne,C., Degos,L. and
            Dejean,A.
  TITLE     The PML-RAR alpha fusion mRNA generated by the t(15;17)
            translocation in acute promyelocytic leukemia encodes a
            functionally altered RAR
  JOURNAL   Cell 66 (4), 675-684 (1991)
   PUBMED   1652369
REFERENCE   10 (bases 1 to 3275)
  AUTHORS   Brand,N.J., Petkovich,M. and Chambon,P.
  TITLE     Characterization of a functional promoter for the human retinoic
            acid receptor-alpha (hRAR-alpha)
  JOURNAL   Nucleic Acids Res 18 (23), 6799-6806 (1990)
   PUBMED   2175878
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DA061829.1, BC008727.2,
            X06614.1 and BM992549.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 23, 2018 this sequence version replaced NM_000964.3.
            
            Summary: This gene represents a nuclear retinoic acid receptor. The
            encoded protein, retinoic acid receptor alpha, regulates
            transcription in a ligand-dependent manner. This gene has been
            implicated in regulation of development, differentiation,
            apoptosis, granulopoeisis, and transcription of clock genes.
            Translocations between this locus and several other loci have been
            associated with acute promyelocytic leukemia. Alternatively spliced
            transcript variants have been found for this locus.[provided by
            RefSeq, Sep 2010].
            
            Transcript Variant: This variant (1) encodes the longest protein
            (isoform 1). Variants 1 and 3 encode the same 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 :: SRR3476690.1168678.1, BC008727.2
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1970526, SAMEA2142348
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000254066.10/ ENSP00000254066.5
            RefSeq Select criteria :: based on conservation
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-14                DA061829.1         10-23
            15-2389             BC008727.2         1-2375
            2390-3255           X06614.1           2023-2888
            3256-3275           BM992549.1         18-37               c
FEATURES             Location/Qualifiers
     source          1..3275
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="17"
                     /map="17q21.2"
     gene            1..3275
                     /gene="RARA"
                     /gene_synonym="NR1B1; RAR; RARalpha"
                     /note="retinoic acid receptor alpha"
                     /db_xref="GeneID:5914"
                     /db_xref="HGNC:HGNC:9864"
                     /db_xref="MIM:180240"
     exon            1..107
                     /gene="RARA"
                     /gene_synonym="NR1B1; RAR; RARalpha"
                     /inference="alignment:Splign:2.1.0"
     exon            108..647
                     /gene="RARA"
                     /gene_synonym="NR1B1; RAR; RARalpha"
                     /inference="alignment:Splign:2.1.0"
     CDS             470..1858
                     /gene="RARA"
                     /gene_synonym="NR1B1; RAR; RARalpha"
                     /note="isoform 1 is encoded by transcript variant 1;
                     retinoic acid receptor, alpha polypeptide;
                     nucleophosmin-retinoic acid receptor alpha fusion protein
                     NPM-RAR long form; PML-DDX5-RARA fusion; TTMV/RARA fusion;
                     TTMV/RARA fusion protein; PML-DDX5-RARA fusion protein;
                     RAR-alpha; nuclear receptor subfamily 1 group B member 1"
                     /codon_start=1
                     /product="retinoic acid receptor alpha isoform 1"
                     /protein_id="NP_000955.1"
                     /db_xref="CCDS:CCDS11366.1"
                     /db_xref="GeneID:5914"
                     /db_xref="HGNC:HGNC:9864"
                     /db_xref="MIM:180240"
                     /translation="MASNSSSCPTPGGGHLNGYPVPPYAFFFPPMLGGLSPPGALTTL
                     QHQLPVSGYSTPSPATIETQSSSSEEIVPSPPSPPPLPRIYKPCFVCQDKSSGYHYGV
                     SACEGCKGFFRRSIQKNMVYTCHRDKNCIINKVTRNRCQYCRLQKCFEVGMSKESVRN
                     DRNKKKKEVPKPECSESYTLTPEVGELIEKVRKAHQETFPALCQLGKYTTNNSSEQRV
                     SLDIDLWDKFSELSTKCIIKTVEFAKQLPGFTTLTIADQITLLKAACLDILILRICTR
                     YTPEQDTMTFSDGLTLNRTQMHNAGFGPLTDLVFAFANQLLPLEMDDAETGLLSAICL
                     ICGDRQDLEQPDRVDMLQEPLLEALKVYVRKRRPSRPHMFPKMLMKITDLRSISAKGA
                     ERVITLKMEIPGSMPPLIQEMLENSEGLDTLSGQPGGGGRDGGGLAPPPGSCSPSLSP
                     SSNRSSPATHSP"
     exon            648..796
                     /gene="RARA"
                     /gene_synonym="NR1B1; RAR; RARalpha"
                     /inference="alignment:Splign:2.1.0"
     exon            797..938
                     /gene="RARA"
                     /gene_synonym="NR1B1; RAR; RARalpha"
                     /inference="alignment:Splign:2.1.0"
     exon            939..1099
                     /gene="RARA"
                     /gene_synonym="NR1B1; RAR; RARalpha"
                     /inference="alignment:Splign:2.1.0"
     exon            1100..1276
                     /gene="RARA"
                     /gene_synonym="NR1B1; RAR; RARalpha"
                     /inference="alignment:Splign:2.1.0"
     exon            1277..1481
                     /gene="RARA"
                     /gene_synonym="NR1B1; RAR; RARalpha"
                     /inference="alignment:Splign:2.1.0"
     exon            1482..1640
                     /gene="RARA"
                     /gene_synonym="NR1B1; RAR; RARalpha"
                     /inference="alignment:Splign:2.1.0"
     exon            1641..3275
                     /gene="RARA"
                     /gene_synonym="NR1B1; RAR; RARalpha"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2404..2409
                     /regulatory_class="polyA_signal_sequence"
                     /gene="RARA"
                     /gene_synonym="NR1B1; RAR; RARalpha"
                     /note="hexamer: AATAAG"
     polyA_site      2428
                     /gene="RARA"
                     /gene_synonym="NR1B1; RAR; RARalpha"
                     /note="major polyA site"
     regulatory      3255..3260
                     /regulatory_class="polyA_signal_sequence"
                     /gene="RARA"
                     /gene_synonym="NR1B1; RAR; RARalpha"
                     /note="hexamer: AATAAA"
     polyA_site      3275
                     /gene="RARA"
                     /gene_synonym="NR1B1; RAR; RARalpha"
                     /note="major polyA site"
ORIGIN      
        1 gcagcagcct aacccagaag caggggggaa tcctgaatcg agctgagagg gcttccccgg
       61 ttctcctggg aaccccatcg gccccctgcc agcacacacc tgagcagcat cacaggacat
      121 ggccccctca gccacctagc tggggcccat ctaggagtgg catctttttt ggtgccctga
      181 aggccagctc tggaccttcc caggaaaagt gccagctcac agaactgctt gaccaaagga
      241 ccggctcttg agacatcccc caacccacct ggcccccagc tagggtgggg gctccaggag
      301 actgagatta gcctgccctc tttggacagc agctccagga cagggcgggt gggctgacca
      361 cccaaacccc atctgggccc aggccccatg ccccgaggag gggtggtctg aagcccacca
      421 gagccccctg ccagactgtc tgcctccctt ctgactgtgg ccgcttggca tggccagcaa
      481 cagcagctcc tgcccgacac ctgggggcgg gcacctcaat gggtacccgg tgcctcccta
      541 cgccttcttc ttccccccta tgctgggtgg actctccccg ccaggcgctc tgaccactct
      601 ccagcaccag cttccagtta gtggatatag cacaccatcc ccagccacca ttgagaccca
      661 gagcagcagt tctgaagaga tagtgcccag ccctccctcg ccaccccctc taccccgcat
      721 ctacaagcct tgctttgtct gtcaggacaa gtcctcaggc taccactatg gggtcagcgc
      781 ctgtgagggc tgcaagggct tcttccgccg cagcatccag aagaacatgg tgtacacgtg
      841 tcaccgggac aagaactgca tcatcaacaa ggtgacccgg aaccgctgcc agtactgccg
      901 actgcagaag tgctttgaag tgggcatgtc caaggagtct gtgagaaacg accgaaacaa
      961 gaagaagaag gaggtgccca agcccgagtg ctctgagagc tacacgctga cgccggaggt
     1021 gggggagctc attgagaagg tgcgcaaagc gcaccaggaa accttccctg ccctctgcca
     1081 gctgggcaaa tacactacga acaacagctc agaacaacgt gtctctctgg acattgacct
     1141 ctgggacaag ttcagtgaac tctccaccaa gtgcatcatt aagactgtgg agttcgccaa
     1201 gcagctgccc ggcttcacca ccctcaccat cgccgaccag atcaccctcc tcaaggctgc
     1261 ctgcctggac atcctgatcc tgcggatctg cacgcggtac acgcccgagc aggacaccat
     1321 gaccttctcg gacgggctga ccctgaaccg gacccagatg cacaacgctg gcttcggccc
     1381 cctcaccgac ctggtctttg ccttcgccaa ccagctgctg cccctggaga tggatgatgc
     1441 ggagacgggg ctgctcagcg ccatctgcct catctgcgga gaccgccagg acctggagca
     1501 gccggaccgg gtggacatgc tgcaggagcc gctgctggag gcgctaaagg tctacgtgcg
     1561 gaagcggagg cccagccgcc cccacatgtt ccccaagatg ctaatgaaga ttactgacct
     1621 gcgaagcatc agcgccaagg gggctgagcg ggtgatcacg ctgaagatgg agatcccggg
     1681 ctccatgccg cctctcatcc aggaaatgtt ggagaactca gagggcctgg acactctgag
     1741 cggacagccg gggggtgggg ggcgggacgg gggtggcctg gcccccccgc caggcagctg
     1801 tagccccagc ctcagcccca gctccaacag aagcagcccg gccacccact ccccgtgacc
     1861 gcccacgcca catggacaca gccctcgccc tccgccccgg cttttctctg cctttctacc
     1921 gaccatgtga ccccgcacca gccctgcccc cacctgccct cccgggcagt actggggacc
     1981 ttccctgggg gacggggagg gaggaggcag cgactccttg gacagaggcc tgggccctca
     2041 gtggactgcc tgctcccaca gcctgggctg acgtcagagg ccgaggccag gaactgagtg
     2101 aggcccctgg tcctgggtct caggatgggt cctgggggcc tcgtgttcat caagacaccc
     2161 ctctgcccag ctcaccacat cttcatcacc agcaaacgcc aggacttggc tcccccatcc
     2221 tcagaactca caagccattg ctccccagct ggggaacctc aacctccccc ctgcctcggt
     2281 tggtgacaga gggggtggga caggggcggg gggttccccc tgtacatacc ctgccatacc
     2341 aaccccaggt attaattctc gctggttttg tttttatttt aatttttttg ttttgatttt
     2401 tttaataaga attttcattt taagcacatt tatactgaag gaatttgtgc tgtgtattgg
     2461 ggggagctgg atccagagct ggagggggtg ggtccggggg agggagtggc tcggaagggg
     2521 cccccactct cctttcatgt ccctgtgccc cccagttctc ctcctcagcc ttttcctcct
     2581 cagttttctc tttaaaactg tgaagtacta actttccaag gcctgccttc ccctccctcc
     2641 cactggagaa gccgccagcc cctttctccc tctgcctgac cactgggtgt ggacggtgtg
     2701 gggcagccct gaaaggacag gctcctggcc ttggcacttg cctgcaccca ccatgaggca
     2761 tggagcaggg cagagcaagg gccccgggac agagttttcc cagacctggc tcctcggcag
     2821 agctgcctcc cgtcagggcc cacatcatct aggctcccca gcccccactg tgaaggggct
     2881 ggccaggggc ccgagctgcc cccacccccg gcctcagcca ccagcacccc catagggccc
     2941 ccagacacca cacacatgcg cgtgcgcaca cacacaaaca cacacacact ggacagtaga
     3001 tgggccgaca cacacttggc ccgagttcct ccatttccct ggcctgcccc ccacccccaa
     3061 cctgtcccac ccccgtgccc cctccttacc ccgcaggacg ggcctacagg ggggtctccc
     3121 ctcacccctg cacccccagc tgggggagct ggctctgccc cgacctcctt caccaggggt
     3181 tggggcccct tcccctggag cccgtgggtg cacctgttac tgttgggctt tccactgaga
     3241 tctactggat aaagaataaa gttctattta ttcta
//
