LOCUS       NM_001290277            3084 bp    mRNA    linear   PRI 07-OCT-2024
DEFINITION  Homo sapiens retinoic acid receptor beta (RARB), transcript variant
            5, mRNA.
ACCESSION   NM_001290277
VERSION     NM_001290277.1
KEYWORDS    RefSeq.
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 3084)
  AUTHORS   Petty,W.J., Li,N., Biddle,A., Bounds,R., Nitkin,C., Ma,Y.,
            Dragnev,K.H., Freemantle,S.J. and Dmitrovsky,E.
  TITLE     A novel retinoic acid receptor beta isoform and retinoid resistance
            in lung carcinogenesis
  JOURNAL   J Natl Cancer Inst 97 (22), 1645-1651 (2005)
   PUBMED   16288117
  REMARK    GeneRIF: In H358 lung cancer cells transiently transfected with
            RARbeta1', RA treatment restored target gene expression compared
            with that in vector-transfected cells and suppressed cell growth
            compared with that in untreated cells.
REFERENCE   2  (bases 1 to 3084)
  AUTHORS   Peng,X., Mehta,R.G., Tonetti,D.A. and Christov,K.
  TITLE     Identification of novel RARbeta2 transcript variants with short
            5'-UTRs in normal and cancerous breast epithelial cells
  JOURNAL   Oncogene 24 (7), 1296-1301 (2005)
   PUBMED   15558014
REFERENCE   3  (bases 1 to 3084)
  AUTHORS   Peng,X., Maruo,T., Cao,Y., Punj,V., Mehta,R., Das Gupta,T.K. and
            Christov,K.
  TITLE     A novel RARbeta isoform directed by a distinct promoter P3 and
            mediated by retinoic acid in breast cancer cells
  JOURNAL   Cancer Res 64 (24), 8911-8918 (2004)
   PUBMED   15604252
REFERENCE   4  (bases 1 to 3084)
  AUTHORS   Jin,P., Fu,G.K., Wilson,A.D., Yang,J., Chien,D., Hawkins,P.R.,
            Au-Young,J. and Stuve,L.L.
  TITLE     PCR isolation and cloning of novel splice variant mRNAs from known
            drug target genes
  JOURNAL   Genomics 83 (4), 566-571 (2004)
   PUBMED   15028279
REFERENCE   5  (bases 1 to 3084)
  AUTHORS   Chen,L.I., Sommer,K.M. and Swisshelm,K.
  TITLE     Downstream codons in the retinoic acid receptor beta -2 and beta -4
            mRNAs initiate translation of a protein isoform that disrupts
            retinoid-activated transcription
  JOURNAL   J Biol Chem 277 (38), 35411-35421 (2002)
   PUBMED   12118004
  REMARK    GeneRIF: downstream codons in mRNAs initiate translation of a
            protein isoform that disrupts retinoid-activated transcription
REFERENCE   6  (bases 1 to 3084)
  AUTHORS   Sommer,K.M., Chen,L.I., Treuting,P.M., Smith,L.T. and Swisshelm,K.
  TITLE     Elevated retinoic acid receptor beta(4) protein in human breast
            tumor cells with nuclear and cytoplasmic localization
  JOURNAL   Proc Natl Acad Sci U S A 96 (15), 8651-8656 (1999)
   PUBMED   10411930
REFERENCE   7  (bases 1 to 3084)
  AUTHORS   Houle,B., Pelletier,M., Wu,J., Goodyer,C. and Bradley,W.E.
  TITLE     Fetal isoform of human retinoic acid receptor beta expressed in
            small cell lung cancer lines
  JOURNAL   Cancer Res 54 (2), 365-369 (1994)
   PUBMED   8275470
REFERENCE   8  (bases 1 to 3084)
  AUTHORS   Bardakjian,T., Weiss,A. and Schneider,A.
  TITLE     Microphthalmia/Anophthalmia/Coloboma Spectrum - RETIRED CHAPTER,
            FOR HISTORICAL REFERENCE ONLY
  JOURNAL   (in) Adam MP, Feldman J, Mirzaa GM, Pagon RA, Wallace SE and
            Amemiya A (Eds.);
            GENEREVIEWS(R);
            (1993)
   PUBMED   20301552
REFERENCE   9  (bases 1 to 3084)
  AUTHORS   Longoni,M., Pober,B.R. and High,F.A.
  TITLE     Congenital Diaphragmatic Hernia Overview
  JOURNAL   (in) Adam MP, Feldman J, Mirzaa GM, Pagon RA, Wallace SE and
            Amemiya A (Eds.);
            GENEREVIEWS(R);
            (1993)
   PUBMED   20301533
REFERENCE   10 (bases 1 to 3084)
  AUTHORS   Nagpal,S., Zelent,A. and Chambon,P.
  TITLE     RAR-beta 4, a retinoic acid receptor isoform is generated from
            RAR-beta 2 by alternative splicing and usage of a CUG initiator
            codon
  JOURNAL   Proc Natl Acad Sci U S A 89 (7), 2718-2722 (1992)
   PUBMED   1313565
REFERENCE   11 (bases 1 to 3084)
  AUTHORS   de The,H., Marchio,A., Tiollais,P. and Dejean,A.
  TITLE     A novel steroid thyroid hormone receptor-related gene
            inappropriately expressed in human hepatocellular carcinoma
  JOURNAL   Nature 330 (6149), 667-670 (1987)
   PUBMED   2825037
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC098477.2, CD014022.1 and
            BC030234.1.
            
            Summary: This gene encodes retinoic acid receptor beta, a member of
            the thyroid-steroid hormone receptor superfamily of nuclear
            transcriptional regulators. This receptor localizes to the
            cytoplasm and to subnuclear compartments. It binds retinoic acid,
            the biologically active form of vitamin A which mediates cellular
            signalling in embryonic morphogenesis, cell growth and
            differentiation. It is thought that this protein limits growth of
            many cell types by regulating gene expression. The gene was first
            identified in a hepatocellular carcinoma where it flanks a
            hepatitis B virus integration site. Alternate promoter usage and
            differential splicing result in multiple transcript variants.
            [provided by RefSeq, Mar 2014].
            
            Transcript Variant: This variant (5) has an alternate splice site
            in the 3' coding region, compared to variant 1. The resulting
            isoform (5) lacks an internal segment, compared to isoform 1.
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            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 :: SRR14038192.598883.1, CD014022.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2142853, SAMEA2145245
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            regulatory uORF :: PMID: 15558014
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-453               AC098477.2         191095-191547
            454-1711            CD014022.1         1-1258
            1712-3084           BC030234.1         1769-3141
FEATURES             Location/Qualifiers
     source          1..3084
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="3"
                     /map="3p24.2"
     gene            1..3084
                     /gene="RARB"
                     /gene_synonym="HAP; MCOPS12; NR1B2; RARbeta; RARbeta1;
                     RRB2"
                     /note="retinoic acid receptor beta"
                     /db_xref="GeneID:5915"
                     /db_xref="HGNC:HGNC:9865"
                     /db_xref="MIM:180220"
     exon            1..626
                     /gene="RARB"
                     /gene_synonym="HAP; MCOPS12; NR1B2; RARbeta; RARbeta1;
                     RRB2"
                     /inference="alignment:Splign:2.1.0"
     regulatory      80..94
                     /regulatory_class="uORF"
                     /gene="RARB"
                     /gene_synonym="HAP; MCOPS12; NR1B2; RARbeta; RARbeta1;
                     RRB2"
                     /experiment="DESCRIPTION:regulatory uORF[PMID:15558014]"
                     /note="this uORF is predicted to encode a 4 aa peptide
                     (PMID:15558014)"
     regulatory      103..156
                     /regulatory_class="uORF"
                     /gene="RARB"
                     /gene_synonym="HAP; MCOPS12; NR1B2; RARbeta; RARbeta1;
                     RRB2"
                     /experiment="DESCRIPTION:regulatory uORF[PMID:15558014]"
                     /note="this uORF is predicted to encode a 17 aa peptide
                     (PMID:15558014)"
     regulatory      267..329
                     /regulatory_class="uORF"
                     /gene="RARB"
                     /gene_synonym="HAP; MCOPS12; NR1B2; RARbeta; RARbeta1;
                     RRB2"
                     /experiment="DESCRIPTION:regulatory uORF[PMID:15558014]"
                     /note="this uORF is predicted to encode a 20 aa peptide
                     (PMID:15558014)"
     regulatory      274..429
                     /regulatory_class="uORF"
                     /gene="RARB"
                     /gene_synonym="HAP; MCOPS12; NR1B2; RARbeta; RARbeta1;
                     RRB2"
                     /experiment="DESCRIPTION:regulatory uORF[PMID:15558014]"
                     /note="this uORF is predicted to encode a 51 aa peptide
                     (PMID:15558014)"
     regulatory      326..385
                     /regulatory_class="uORF"
                     /gene="RARB"
                     /gene_synonym="HAP; MCOPS12; NR1B2; RARbeta; RARbeta1;
                     RRB2"
                     /experiment="DESCRIPTION:regulatory uORF[PMID:15558014]"
                     /note="this uORF is predicted to encode a 19 aa peptide
                     (PMID:15558014)"
     regulatory      407..436
                     /regulatory_class="uORF"
                     /gene="RARB"
                     /gene_synonym="HAP; MCOPS12; NR1B2; RARbeta; RARbeta1;
                     RRB2"
                     /experiment="DESCRIPTION:regulatory uORF[PMID:15558014]"
                     /note="this uORF is predicted to encode a 9 aa peptide
                     (PMID:15558014)"
     CDS             470..1678
                     /gene="RARB"
                     /gene_synonym="HAP; MCOPS12; NR1B2; RARbeta; RARbeta1;
                     RRB2"
                     /note="isoform 5 is encoded by transcript variant 5;
                     retinoic acid receptor, beta polypeptide; hepatitis B
                     virus activated protein; HBV-activated protein;
                     RAR-epsilon; RAR-beta; nuclear receptor subfamily 1 group
                     B member 2"
                     /codon_start=1
                     /product="retinoic acid receptor beta isoform 5"
                     /protein_id="NP_001277206.1"
                     /db_xref="CCDS:CCDS93228.1"
                     /db_xref="GeneID:5915"
                     /db_xref="HGNC:HGNC:9865"
                     /db_xref="MIM:180220"
                     /translation="MFDCMDVLSVSPGQILDFYTASPSSCMLQEKALKACFSGLTQTE
                     WQHRHTAQSIETQSTSSEELVPSPPSPLPPPRVYKPCFVCQDKSSGYHYGVSACEGCK
                     GFFRRSIQKNMIYTCHRDKNCVINKVTRNRCQYCRLQKCFEVGMSKESVRNDRNKKKK
                     ETSKQECTESYEMTAELDDLTEKIRKAHQETFPSLCQLGKYTTNSSADHRVRLDLGLW
                     DKFSELATKCIIKIVEFAKRLPGFTGLTIADQITLLKAACLDILLLPLEMDDTETGLL
                     SAICLICGDRQDLEEPTKVDKLQEPLLEALKIYIRKRRPSKPHMFPKILMKITDLRSI
                     SAKGAERVITLKMEIPGSMPPLIQEMLENSEGHEPLTPSSSGNTAEHSPSISPSSVEN
                     SGVSQSPLVQ"
     exon            627..775
                     /gene="RARB"
                     /gene_synonym="HAP; MCOPS12; NR1B2; RARbeta; RARbeta1;
                     RRB2"
                     /inference="alignment:Splign:2.1.0"
     exon            776..917
                     /gene="RARB"
                     /gene_synonym="HAP; MCOPS12; NR1B2; RARbeta; RARbeta1;
                     RRB2"
                     /inference="alignment:Splign:2.1.0"
     exon            918..1078
                     /gene="RARB"
                     /gene_synonym="HAP; MCOPS12; NR1B2; RARbeta; RARbeta1;
                     RRB2"
                     /inference="alignment:Splign:2.1.0"
     exon            1079..1255
                     /gene="RARB"
                     /gene_synonym="HAP; MCOPS12; NR1B2; RARbeta; RARbeta1;
                     RRB2"
                     /inference="alignment:Splign:2.1.0"
     exon            1256..1322
                     /gene="RARB"
                     /gene_synonym="HAP; MCOPS12; NR1B2; RARbeta; RARbeta1;
                     RRB2"
                     /inference="alignment:Splign:2.1.0"
     exon            1323..1481
                     /gene="RARB"
                     /gene_synonym="HAP; MCOPS12; NR1B2; RARbeta; RARbeta1;
                     RRB2"
                     /inference="alignment:Splign:2.1.0"
     exon            1482..2994
                     /gene="RARB"
                     /gene_synonym="HAP; MCOPS12; NR1B2; RARbeta; RARbeta1;
                     RRB2"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2978..2983
                     /regulatory_class="polyA_signal_sequence"
                     /gene="RARB"
                     /gene_synonym="HAP; MCOPS12; NR1B2; RARbeta; RARbeta1;
                     RRB2"
                     /note="hexamer: AATATA"
     polyA_site      2994
                     /gene="RARB"
                     /gene_synonym="HAP; MCOPS12; NR1B2; RARbeta; RARbeta1;
                     RRB2"
                     /note="major polyA site"
ORIGIN      
        1 gtgacagaag tagtaggaag tgagctgttc agaggcagga gggtctattc tttgccaaag
       61 gggggaccag aattccccca tgcgagctgt ttgaggactg ggatgccgag aacgcgagcg
      121 atccgagcag ggtttgtctg ggcaccgtcg gggtaggatc cggaacgcat tcggaaggct
      181 ttttgcaagc atttacttgg aaggagaact tgggatcttt ctgggaaccc cccgccccgg
      241 ctggattggc cgagcaagcc tggaaaatgg taaatgatca tttggatcaa ttacaggctt
      301 ttagctggct tgtctgtcat aattcatgat tcggggctgg gaaaaagacc aacagcctac
      361 gtgccaaaaa aggggcagag tttgatggag ttgggtggac ttttctatgc catttgcctc
      421 cacacctaga ggataagcac ttttgcagac attcagtgca agggagatca tgtttgactg
      481 tatggatgtt ctgtcagtga gtcctgggca aatcctggat ttctacactg cgagtccgtc
      541 ttcctgcatg ctccaggaga aagctctcaa agcatgcttc agtggattga cccaaaccga
      601 atggcagcat cggcacactg ctcaatcaat tgaaacacag agcaccagct ctgaggaact
      661 cgtcccaagc cccccatctc cacttcctcc ccctcgagtg tacaaaccct gcttcgtctg
      721 ccaggacaaa tcatcagggt accactatgg ggtcagcgcc tgtgagggat gtaagggctt
      781 tttccgcaga agtattcaga agaatatgat ttacacttgt caccgagata agaactgtgt
      841 tattaataaa gtcaccagga atcgatgcca atactgtcga ctccagaagt gctttgaagt
      901 gggaatgtcc aaagaatctg tcaggaatga caggaacaag aaaaagaagg agacttcgaa
      961 gcaagaatgc acagagagct atgaaatgac agctgagttg gacgatctca cagagaagat
     1021 ccgaaaagct caccaggaaa ctttcccttc actctgccag ctgggtaaat acaccacgaa
     1081 ttccagtgct gaccatcgag tccgactgga cctgggcctc tgggacaaat tcagtgaact
     1141 ggccaccaag tgcattatta agatcgtgga gtttgctaaa cgtctgcctg gtttcactgg
     1201 cttgaccatc gcagaccaaa ttaccctgct gaaggccgcc tgcctggaca tcctgctcct
     1261 gcctttggaa atggatgaca cagaaacagg ccttctcagt gccatctgct taatctgtgg
     1321 agaccgccag gaccttgagg aaccgacaaa agtagataag ctacaagaac cattgctgga
     1381 agcactaaaa atttatatca gaaaaagacg acccagcaag cctcacatgt ttccaaagat
     1441 cttaatgaaa atcacagatc tccgtagcat cagtgctaaa ggtgcagagc gtgtaattac
     1501 cttgaaaatg gaaattcctg gatcaatgcc acctctcatt caagaaatgc tggagaattc
     1561 tgaaggacat gaacccttga ccccaagttc aagtgggaac acagcagagc acagtcctag
     1621 catctcaccc agctcagtgg aaaacagtgg ggtcagtcag tcaccactcg tgcaataaga
     1681 cattttctag ctacttcaaa cattccccag taccttcagt tccaggattt aaaatgcaag
     1741 aaaaaacatt tttactgctg cttagttttt ggactgaaaa gatattaaaa ctcaagaagg
     1801 accaagaagt tttcatatgt atcaatatat atactcctca ctgtgtaact tacctagaaa
     1861 tacaaacttt tccaatttta aaaaatcagc catttcatgc aaccagaaac tagttaaaag
     1921 cttctatttt cctctttgaa cactcaagat tgcatggcaa agacccagtc aaaatgattt
     1981 acccctggtt aagtttctga agactttgta catacagaag tatggctctg ttctttctat
     2041 actgtatgtt tggtgctttc cttttgtctt gcatactcaa aataaccatg acaccaaggt
     2101 tatgaaatag actactgtac acgtctacct aggttcaaaa agataactgt cttgctttca
     2161 tggaatagtc aagacatcaa ggtaaggaaa caggactatt gacaggacta ttgtacagta
     2221 tgacaagata aggctgaaga tattctactt tagttagtat ggaagcttgt ctttgctctt
     2281 tctgatgctc tcaaactgca tcttttattt catgttgccc agtaaaagta tacaaattcc
     2341 ctgcactagc agaagagaat tctgtatcag tgtaactgcc agttcagtta atcaaatgtc
     2401 atttgttcaa ttgttaatgt cactttaaat taaaagtggt ttattacttg tttaatgaca
     2461 taactacaca gttagttaaa aaaaattttt ttacagtaat gatagcctcc aaggcagaaa
     2521 cacttttcag tgttaagttt ttgtttactt gttcacaagc cattagggaa atttcatggg
     2581 ataattagca ggctggtcta ccacctggac catgtaactc tagtgtcctt cctgattcat
     2641 gcctgatatt gggatttttt tttccagcct tcttgatgcc aaggggctaa ttaatattaa
     2701 caactcccaa agaaacaggc atagaatctg cctcctttga ccttgttcaa tcactatgaa
     2761 gcagagtgaa agctgtggta gagtggttaa cagatacaag tgtcagtttc ttagttctca
     2821 tttaagcact agtggaattt tttttttttg atatattagc aagtctgtga tgtactttca
     2881 ctggctctgt ttgtacattg agattgtttg tttaacaatg ctttctatgt tcatatactg
     2941 tttacctttt tccatggagt ctcctggcaa agaataaaat atatttattt taaaaaaaaa
     3001 aaaaaaaaaa aaaaaaaaaa aaaaaaaaaa aaaaaaaaaa aaaaaaaaaa aaaaaaaaaa
     3061 aaaaaaaaaa aaaaaaaaaa aaaa
//
