LOCUS       NM_009024               3251 bp    mRNA    linear   ROD 10-FEB-2025
DEFINITION  Mus musculus retinoic acid receptor, alpha (Rara), transcript
            variant 1, mRNA.
ACCESSION   NM_009024
VERSION     NM_009024.2
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 3251)
  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   2  (bases 1 to 3251)
  AUTHORS   DiKun,K.M., Tang,X.H., Fu,L., Choi,M.E., Lu,C. and Gudas,L.J.
  TITLE     Retinoic acid receptor alpha activity in proximal tubules prevents
            kidney injury and fibrosis
  JOURNAL   Proc Natl Acad Sci U S A 121 (7), e2311803121 (2024)
   PUBMED   38330015
  REMARK    GeneRIF: Retinoic acid receptor alpha activity in proximal tubules
            prevents kidney injury and fibrosis.
REFERENCE   3  (bases 1 to 3251)
  AUTHORS   Cassim Bawa,F.N., Hu,S., Gopoju,R., Shiyab,A., Mongan,K., Xu,Y.,
            Pan,X., Clark,A., Wang,H. and Zhang,Y.
  TITLE     Adipocyte retinoic acid receptor alpha prevents obesity and
            steatohepatitis by regulating energy expenditure and lipogenesis
  JOURNAL   Obesity (Silver Spring) 32 (1), 120-130 (2024)
   PUBMED   37873741
  REMARK    GeneRIF: Adipocyte retinoic acid receptor alpha prevents obesity
            and steatohepatitis by regulating energy expenditure and
            lipogenesis.
REFERENCE   4  (bases 1 to 3251)
  AUTHORS   Queen,R., Crosier,M., Eley,L., Kerwin,J., Turner,J.E., Yu,J.,
            Alqahtani,A., Dhanaseelan,T., Overman,L., Soetjoadi,H., Baldock,R.,
            Coxhead,J., Boczonadi,V., Laude,A., Cockell,S.J., Kane,M.A.,
            Lisgo,S. and Henderson,D.J.
  TITLE     Spatial transcriptomics reveals novel genes during the remodelling
            of the embryonic human arterial valves
  JOURNAL   PLoS Genet 19 (11), e1010777 (2023)
   PUBMED   38011284
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 3251)
  AUTHORS   Zhang,Q., Li,H., Chen,X., Gu,F., Zhang,L., Zhang,L., Chen,T.,
            Chen,Q., Meng,W., Wu,Y., Chang,H., Liu,T., Chen,C., Ma,H. and
            Liu,Y.
  TITLE     Identifying STRN3-RARA as a new fusion gene for acute promyelocytic
            leukemia
  JOURNAL   Blood 142 (17), 1494-1499 (2023)
   PUBMED   37624915
  REMARK    GeneRIF: Identifying STRN3-RARA as a new fusion gene for acute
            promyelocytic leukemia.
REFERENCE   6  (bases 1 to 3251)
  AUTHORS   Rochette-Egly,C., Gaub,M.P., Lutz,Y., Ali,S., Scheuer,I. and
            Chambon,P.
  TITLE     Retinoic acid receptor-beta: immunodetection and phosphorylation on
            tyrosine residues
  JOURNAL   Mol Endocrinol 6 (12), 2197-2209 (1992)
   PUBMED   1283441
REFERENCE   7  (bases 1 to 3251)
  AUTHORS   Wu,T.C., Wang,L. and Wan,Y.J.
  TITLE     Retinoic acid regulates gene expression of retinoic acid receptors
            alpha, beta and gamma in F9 mouse teratocarcinoma cells
  JOURNAL   Differentiation 51 (3), 219-224 (1992)
   PUBMED   1334013
REFERENCE   8  (bases 1 to 3251)
  AUTHORS   Gaub,M.P., Rochette-Egly,C., Lutz,Y., Ali,S., Matthes,H.,
            Scheuer,I. and Chambon,P.
  TITLE     Immunodetection of multiple species of retinoic acid receptor
            alpha: evidence for phosphorylation
  JOURNAL   Exp Cell Res 201 (2), 335-346 (1992)
   PUBMED   1322315
REFERENCE   9  (bases 1 to 3251)
  AUTHORS   Kruyt,F.A., van der Veer,L.J., Mader,S., van den Brink,C.E.,
            Feijen,A., Jonk,L.J., Kruijer,W. and van der Saag,P.T.
  TITLE     Retinoic acid resistance of the variant embryonal carcinoma cell
            line RAC65 is caused by expression of a truncated RAR alpha
  JOURNAL   Differentiation 49 (1), 27-37 (1992)
   PUBMED   1320576
REFERENCE   10 (bases 1 to 3251)
  AUTHORS   Morriss-Kay,G.
  TITLE     Retinoic acid receptors in normal growth and development
  JOURNAL   Cancer Surv 14, 181-193 (1992)
   PUBMED   1330302
  REMARK    Review article
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL591067.35 and AK042163.1.
            
            On Oct 27, 2006 this sequence version replaced NM_009024.1.
            
            Transcript Variant: This variant (1) encodes the longest 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 :: BC010216.1, AK154623.1 [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
            1-184               AL591067.35        81120-81303
            185-2429            AK042163.1         64-2308
            2430-3251           AL591067.35        117545-118366
FEATURES             Location/Qualifiers
     source          1..3251
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="11"
                     /map="11 62.76 cM"
     gene            1..3251
                     /gene="Rara"
                     /gene_synonym="Nr1b1; RAR; RARalpha1"
                     /note="retinoic acid receptor, alpha"
                     /db_xref="GeneID:19401"
                     /db_xref="MGI:MGI:97856"
     exon            1..184
                     /gene="Rara"
                     /gene_synonym="Nr1b1; RAR; RARalpha1"
                     /inference="alignment:Splign:2.1.0"
     exon            185..735
                     /gene="Rara"
                     /gene_synonym="Nr1b1; RAR; RARalpha1"
                     /inference="alignment:Splign:2.1.0"
     CDS             558..1946
                     /gene="Rara"
                     /gene_synonym="Nr1b1; RAR; RARalpha1"
                     /note="isoform 1 is encoded by transcript variant 1;
                     RAR-alpha; nuclear receptor subfamily 1 group B member 1;
                     RAR alpha 1"
                     /codon_start=1
                     /product="retinoic acid receptor alpha isoform 1"
                     /protein_id="NP_033050.2"
                     /db_xref="CCDS:CCDS36304.1"
                     /db_xref="GeneID:19401"
                     /db_xref="MGI:MGI:97856"
                     /translation="MASNSSSCPTPGGGHLNGYPVPPYAFFFPPMLGGLSPPGALTSL
                     QHQLPVSGYSTPSPATIETQSSSSEEIVPSPPSPPPLPRIYKPCFVCQDKSSGYHYGV
                     SACEGCKGFFRRSIQKNMVYTCHRDKNCIINKVTRNRCQYCRLQKCFDVGMSKESVRN
                     DRNKKKKEAPKPECSESYTLTPEVGELIEKVRKAHQETFPALCQLGKYTTNNSSEQRV
                     SLDIDLWDKFSELSTKCIIKTVEFAKQLPGFTTLTIADQITLLKAACLDILILRICTR
                     YTPEQDTMTFSDGLTLNRTQMHNAGFGPLTDLVFAFANQLLPLEMDDAETGLLSAICL
                     ICGDRQDLEQPDKVDMLQEPLLEALKVYVRKRRPSRPHMFPKMLMKITDLRSISAKGA
                     ERVITLKMEIPGSMPPLIQEMLENSEGLDTLSGQSGGGTRDGGGLAPPPGSCSPSLSP
                     SSHRSSPATQSP"
     exon            736..884
                     /gene="Rara"
                     /gene_synonym="Nr1b1; RAR; RARalpha1"
                     /inference="alignment:Splign:2.1.0"
     exon            885..1026
                     /gene="Rara"
                     /gene_synonym="Nr1b1; RAR; RARalpha1"
                     /inference="alignment:Splign:2.1.0"
     exon            1027..1187
                     /gene="Rara"
                     /gene_synonym="Nr1b1; RAR; RARalpha1"
                     /inference="alignment:Splign:2.1.0"
     exon            1188..1364
                     /gene="Rara"
                     /gene_synonym="Nr1b1; RAR; RARalpha1"
                     /inference="alignment:Splign:2.1.0"
     exon            1365..1569
                     /gene="Rara"
                     /gene_synonym="Nr1b1; RAR; RARalpha1"
                     /inference="alignment:Splign:2.1.0"
     exon            1570..1728
                     /gene="Rara"
                     /gene_synonym="Nr1b1; RAR; RARalpha1"
                     /inference="alignment:Splign:2.1.0"
     exon            1729..3251
                     /gene="Rara"
                     /gene_synonym="Nr1b1; RAR; RARalpha1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2447..2452
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Rara"
                     /gene_synonym="Nr1b1; RAR; RARalpha1"
                     /note="hexamer: AATAAG"
     polyA_site      2471
                     /gene="Rara"
                     /gene_synonym="Nr1b1; RAR; RARalpha1"
                     /note="major polyA site"
     regulatory      3228..3233
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Rara"
                     /gene_synonym="Nr1b1; RAR; RARalpha1"
                     /note="hexamer: AATAAA"
     polyA_site      3251
                     /gene="Rara"
                     /gene_synonym="Nr1b1; RAR; RARalpha1"
                     /note="major polyA site"
ORIGIN      
        1 tttcagcctc tgcacgtgac tcgccatggc cgctgccgtc gccccgcgcc cctgagctgc
       61 ggccccccgg acggctcctc tcggaggacc ccacacccct gacgccgggc agcgccgcgg
      121 cgcctgcttg gggcagaccc tgtgcccgca gacacgcaga cgggttgcat cccctcgctt
      181 cgagcaccac aggacatgcc tccccccagc cacctacctg gggcccttct gggagtggca
      241 tcctctttga taccctgaag accagctctg gaccttccta caaaagtgtc tcccaggacc
      301 gcttaaccaa aggacggatt cttgggacat cccccaatcc acctggcccc tccggctagg
      361 gagggggacc cagaagacta aagttgacta acttgggact tgcagctcca gggacagaag
      421 ggggtggggg tgggctgacc acccaacccc ccctctgggc cccccggccc catgccccga
      481 ggaagaggga ctgcgtgaag gccatcacaa ctacctgcca gactgtttgc ctgctcttct
      541 gactgtggct gcttggcatg gccagcaata gcagttcctg cccaacacct gggggcgggc
      601 acctcaatgg gtacccagta cccccctacg ccttcttctt tccccctatg ctgggtggac
      661 tctccccacc cggcgctctc accagcctcc agcaccagct tccagtcagt ggttacagca
      721 caccgtcccc agccaccatc gagacccaga gcagcagttc cgaagagata gtacccagcc
      781 ctccctcacc accgcccctg ccccgcatct acaagccttg ctttgtttgt caagacaaat
      841 catccggcta ccactatggg gtcagcgcct gtgagggctg taagggcttc ttccgacgaa
      901 gcatccagaa gaacatggtg tatacgtgtc accgggacaa gaactgcatc atcaacaagg
      961 tgacccggaa ccgctgccag tactgccggc tgcagaaatg tttcgacgtg ggcatgtcca
     1021 aggagtcggt gcgaaacgat cgaaacaaaa agaagaaaga ggcacccaag cccgagtgct
     1081 cagagagcta cacgctgacg cctgaggtgg gcgagctcat tgagaaggtt cgcaaagcgc
     1141 accaggagac cttcccggcc ctctgccagc tgggcaagta cactacgaac aacagctcag
     1201 aacaacgagt ctccctggac attgacctct gggacaagtt cagtgaactc tccaccaagt
     1261 gcatcattaa gactgtggag ttcgccaagc agcttcccgg cttcaccacc ctcaccatcg
     1321 ccgaccagat caccctcctc aaggctgcct gcctggatat cctgattctg cgaatctgca
     1381 cgcggtacac gcctgagcaa gacacaatga ccttctcaga tggactgacc ctgaaccgga
     1441 ctcagatgca caacgctggc tttggccccc tcaccgactt ggtctttgcc ttcgccaacc
     1501 agctgctgcc cctggagatg gacgatgctg agactggact gctcagtgcc atctgcctca
     1561 tctgtggaga ccgacaggac ctggagcagc cagacaaggt ggacatgctg caagagccgc
     1621 tgctggaagc actgaaagtc tacgtccgga aacggaggcc cagccgaccc cacatgttcc
     1681 ccaagatgct gatgaagatc acagaccttc ggagcatcag cgccaaggga gctgaacggg
     1741 tgatcacatt gaagatggag atcccaggct ccatgccacc gctgatccag gaaatgctgg
     1801 agaactctga gggcttggac actctaagcg gacagtcggg gggcggaaca cgagatgggg
     1861 gtggcctggc cccccctccg ggtagctgta gccccagcct cagtcccagc tcccacagaa
     1921 gcagcccagc cacccaatcc ccatgaccac ctcgacacac ggacagccct cacccctgcc
     1981 ctggctttct ctgccttcct gctggccgtg tgacctgtcg gccccgggcc cgcttgtcct
     2041 ctcagacaga actgggtacc ttccaggggg gacaggaagg agaaggcagt gactctgtgg
     2101 acagaggcct ggacccaaga tggactgccc tcttccggca gcctgggctg gcatcgggcc
     2161 aggcgttgag ccacatgagg acctgggcct gagccctcac ccaccttgcc acgtcttcat
     2221 caccagcaaa cgccgggacc tggctccctg tcctcggaac tcaagccatc gctccccaga
     2281 tggggacttc cccccgaccc ccgctttgga tggtgacaga gggtgcccag ggtgggggag
     2341 actccctgta catatcctgc gtaccaatcc ccagatatta attctcgttg gttttgtttt
     2401 tattttaatt tttttgtttt tgtttttttg ttttttggtt ttttttaata agaattttca
     2461 ttttaagcac atttatactg aaggaatttg tgctgtgtat tgggggagct ggatctcgag
     2521 ctgaaggggg tgggtcccgg ggacgggcag ggctcggaag ggatcccctc tcctttgatg
     2581 tcccagcaga tgctcccaca tcccagtctt tgctcctcag ttttctctaa tactgtgaaa
     2641 tactaacttt ccaaggccac cttccctgtc ccgtgcagga aagcagcttc ccctcccccc
     2701 tctgcccagc cactgggtgt gggcatcttg ggcagctatc cctgggagga gaggatcctg
     2761 gcttttggct tgtcccccta cccaccaata atcagggtaa gggtgaagct agggcccctg
     2821 ggatagactg ttcctcctca ctgcccgtca gagctcactt catccaagcc ccagccccac
     2881 tgtgaagggg ccggctaagg ggtccaagtt accccagccc ccagcctcat agccaccagc
     2941 accccatggg gcccttcaac acacacacac acacacacac acacacacac acacacacac
     3001 acacacacac acacggcctg agttcctcca attcccccag cctaccccca acccctcttg
     3061 gccccctcct tgccccgcag gacgggactc cagggggtcc cctcccctac acccctgggc
     3121 tgggggagca ggctctacct tgccctcctg cctgggtggg gtctcaccct ggagcccact
     3181 ggcgcacctg ttcctgctgg gtttccactg agatctactg gagaaagaat aaagttctat
     3241 ttattctata a
//
