LOCUS       NM_021976               2885 bp    mRNA    linear   PRI 20-SEP-2024
DEFINITION  Homo sapiens retinoid X receptor beta (RXRB), transcript variant 2,
            mRNA.
ACCESSION   NM_021976
VERSION     NM_021976.5
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 2885)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   2  (bases 1 to 2885)
  AUTHORS   Zhang,R., Fu,Z., Fan,H., Tian,T., Wu,M., Xie,C., Huang,P., Yu,R.,
            Zhang,Y., Zhang,W. and Wang,J.
  TITLE     Genetic variant of RXR involved in the vitamin D metabolic pathway
            was linked to HCV infection outcomes among a high-risk Chinese
            population
  JOURNAL   Infect Genet Evol 87, 104641 (2021)
   PUBMED   33246082
  REMARK    GeneRIF: Genetic variant of RXR involved in the vitamin D metabolic
            pathway was linked to HCV infection outcomes among a high-risk
            Chinese population.
REFERENCE   3  (bases 1 to 2885)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   4  (bases 1 to 2885)
  AUTHORS   Fragoza,R., Das,J., Wierbowski,S.D., Liang,J., Tran,T.N., Liang,S.,
            Beltran,J.F., Rivera-Erick,C.A., Ye,K., Wang,T.Y., Yao,L., Mort,M.,
            Stenson,P.D., Cooper,D.N., Wei,X., Keinan,A., Schimenti,J.C.,
            Clark,A.G. and Yu,H.
  TITLE     Extensive disruption of protein interactions by genetic variants
            across the allele frequency spectrum in human populations
  JOURNAL   Nat Commun 10 (1), 4141 (2019)
   PUBMED   31515488
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 2885)
  AUTHORS   Chen,S., Fragoza,R., Klei,L., Liu,Y., Wang,J., Roeder,K., Devlin,B.
            and Yu,H.
  TITLE     An interactome perturbation framework prioritizes damaging missense
            mutations for developmental disorders
  JOURNAL   Nat Genet 50 (7), 1032-1040 (2018)
   PUBMED   29892012
REFERENCE   6  (bases 1 to 2885)
  AUTHORS   Berrodin,T.J., Marks,M.S., Ozato,K., Linney,E. and Lazar,M.A.
  TITLE     Heterodimerization among thyroid hormone receptor, retinoic acid
            receptor, retinoid X receptor, chicken ovalbumin upstream promoter
            transcription factor, and an endogenous liver protein
  JOURNAL   Mol Endocrinol 6 (9), 1468-1478 (1992)
   PUBMED   1331778
REFERENCE   7  (bases 1 to 2885)
  AUTHORS   Fleischhauer,K., Park,J.H., DiSanto,J.P., Marks,M., Ozato,K. and
            Yang,S.Y.
  TITLE     Isolation of a full-length cDNA clone encoding a N-terminally
            variant form of the human retinoid X receptor beta
  JOURNAL   Nucleic Acids Res 20 (7), 1801 (1992)
   PUBMED   1315958
REFERENCE   8  (bases 1 to 2885)
  AUTHORS   Leid,M., Kastner,P., Lyons,R., Nakshatri,H., Saunders,M.,
            Zacharewski,T., Chen,J.Y., Staub,A., Garnier,J.M., Mader,S. et al.
  TITLE     Purification, cloning, and RXR identity of the HeLa cell factor
            with which RAR or TR heterodimerizes to bind target sequences
            efficiently
  JOURNAL   Cell 68 (2), 377-395 (1992)
   PUBMED   1310259
  REMARK    Erratum:[Cell. 1992 Nov 27;71(5):887.. PMID: 1330328]
REFERENCE   9  (bases 1 to 2885)
  AUTHORS   Epplen,C. and Epplen,J.T.
  TITLE     The human cDNA sequence homologous to the mouse MHC class I
            promoter-binding protein gene contains four additional codons in
            lymphocytes
  JOURNAL   Mamm Genome 3 (8), 472-475 (1992)
   PUBMED   1514958
REFERENCE   10 (bases 1 to 2885)
  AUTHORS   Yu,V.C., Delsert,C., Andersen,B., Holloway,J.M., Devary,O.V.,
            Naar,A.M., Kim,S.Y., Boutin,J.M., Glass,C.K. and Rosenfeld,M.G.
  TITLE     RXR beta: a coregulator that enhances binding of retinoic acid,
            thyroid hormone, and vitamin D receptors to their cognate response
            elements
  JOURNAL   Cell 67 (6), 1251-1266 (1991)
   PUBMED   1662118
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DC425042.1, BC001167.1,
            BE704198.1, AL645940.4 and AW473828.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Jun 2, 2019 this sequence version replaced NM_021976.4.
            
            Summary: This gene encodes a member of the retinoid X receptor
            (RXR) family of nuclear receptors which are involved in mediating
            the effects of retinoic acid (RA). The encoded protein forms
            homodimers with the retinoic acid, thyroid hormone, and vitamin D
            receptors, increasing both DNA binding and transcriptional function
            on their respective response elements. This gene lies within the
            major histocompatibility complex (MHC) class II region on
            chromosome 6. Alternatively spliced transcript variants encoding
            multiple isoforms have been observed for this gene. [provided by
            RefSeq, Jul 2012].
            
            Transcript Variant: This variant (2) uses an alternate splice site
            in the coding region, but maintains the reading frame, compared to
            variant 1. The encoded isoform (2) is shorter than 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 :: SRR14038193.218749.1, BC001167.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000374680.4/ ENSP00000363812.3
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-10                DC425042.1         32-41
            11-1340             BC001167.1         1-1330
            1341-1789           BE704198.1         12-460              c
            1790-2620           AL645940.4         78890-79720         c
            2621-2885           AW473828.1         4-268               c
FEATURES             Location/Qualifiers
     source          1..2885
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="6"
                     /map="6p21.32"
     gene            1..2885
                     /gene="RXRB"
                     /gene_synonym="DAUDI6; H-2RIIBP; NR2B2; RCoR-1; RXR-beta;
                     RXRbeta"
                     /note="retinoid X receptor beta"
                     /db_xref="GeneID:6257"
                     /db_xref="HGNC:HGNC:10478"
                     /db_xref="MIM:180246"
     exon            1..424
                     /gene="RXRB"
                     /gene_synonym="DAUDI6; H-2RIIBP; NR2B2; RCoR-1; RXR-beta;
                     RXRbeta"
                     /inference="alignment:Splign:2.1.0"
     CDS             190..1791
                     /gene="RXRB"
                     /gene_synonym="DAUDI6; H-2RIIBP; NR2B2; RCoR-1; RXR-beta;
                     RXRbeta"
                     /note="isoform 2 is encoded by transcript variant 2; MHC
                     class I promoter binding protein; retinoic acid receptor
                     RXR-beta; nuclear receptor subfamily 2 group B member 2"
                     /codon_start=1
                     /product="retinoic acid receptor RXR-beta isoform 2"
                     /protein_id="NP_068811.1"
                     /db_xref="CCDS:CCDS4768.1"
                     /db_xref="GeneID:6257"
                     /db_xref="HGNC:HGNC:10478"
                     /db_xref="MIM:180246"
                     /translation="MSWAARPPFLPQRHAAGQCGPVGVRKEMHCGVASRWRRRRPWLD
                     PAAAAAAAVAGGEQQTPEPEPGEAGRDGMGDSGRDSRSPDSSSPNPLPQGVPPPSPPG
                     PPLPPSTAPSLGGSGAPPPPPMPPPPLGSPFPVISSSMGSPGLPPPAPPGFSGPVSSP
                     QINSTVSLPGGGSGPPEDVKPPVLGVRGLHCPPPPGGPGAGKRLCAICGDRSSGKHYG
                     VYSCEGCKGFFKRTIRKDLTYSCRDNKDCTVDKRQRNRCQYCRYQKCLATGMKREAVQ
                     EERQRGKDKDGDGEGAGGAPEEMPVDRILEAELAVEQKSDQGVEGPGGTGGSGSSPND
                     PVTNICQAADKQLFTLVEWAKRIPHFSSLPLDDQVILLRAGWNELLIASFSHRSIDVR
                     DGILLATGLHVHRNSAHSAGVGAIFDRVLTELVSKMRDMRMDKTELGCLRAIILFNPD
                     AKGLSNPSEVEVLREKVYASLETYCKQKYPEQQGRFAKLLLRLPALRSIGLKCLEHLF
                     FFKLIGDTPIDTFLMEMLEAPHQLA"
     exon            425..672
                     /gene="RXRB"
                     /gene_synonym="DAUDI6; H-2RIIBP; NR2B2; RCoR-1; RXR-beta;
                     RXRbeta"
                     /inference="alignment:Splign:2.1.0"
     exon            673..829
                     /gene="RXRB"
                     /gene_synonym="DAUDI6; H-2RIIBP; NR2B2; RCoR-1; RXR-beta;
                     RXRbeta"
                     /inference="alignment:Splign:2.1.0"
     exon            830..1009
                     /gene="RXRB"
                     /gene_synonym="DAUDI6; H-2RIIBP; NR2B2; RCoR-1; RXR-beta;
                     RXRbeta"
                     /inference="alignment:Splign:2.1.0"
     exon            1010..1182
                     /gene="RXRB"
                     /gene_synonym="DAUDI6; H-2RIIBP; NR2B2; RCoR-1; RXR-beta;
                     RXRbeta"
                     /inference="alignment:Splign:2.1.0"
     exon            1183..1312
                     /gene="RXRB"
                     /gene_synonym="DAUDI6; H-2RIIBP; NR2B2; RCoR-1; RXR-beta;
                     RXRbeta"
                     /inference="alignment:Splign:2.1.0"
     exon            1313..1445
                     /gene="RXRB"
                     /gene_synonym="DAUDI6; H-2RIIBP; NR2B2; RCoR-1; RXR-beta;
                     RXRbeta"
                     /inference="alignment:Splign:2.1.0"
     exon            1446..1537
                     /gene="RXRB"
                     /gene_synonym="DAUDI6; H-2RIIBP; NR2B2; RCoR-1; RXR-beta;
                     RXRbeta"
                     /inference="alignment:Splign:2.1.0"
     exon            1538..1643
                     /gene="RXRB"
                     /gene_synonym="DAUDI6; H-2RIIBP; NR2B2; RCoR-1; RXR-beta;
                     RXRbeta"
                     /inference="alignment:Splign:2.1.0"
     exon            1644..2885
                     /gene="RXRB"
                     /gene_synonym="DAUDI6; H-2RIIBP; NR2B2; RCoR-1; RXR-beta;
                     RXRbeta"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2864..2869
                     /regulatory_class="polyA_signal_sequence"
                     /gene="RXRB"
                     /gene_synonym="DAUDI6; H-2RIIBP; NR2B2; RCoR-1; RXR-beta;
                     RXRbeta"
                     /note="hexamer: ATTAAA"
     polyA_site      2885
                     /gene="RXRB"
                     /gene_synonym="DAUDI6; H-2RIIBP; NR2B2; RCoR-1; RXR-beta;
                     RXRbeta"
                     /note="major polyA site"
ORIGIN      
        1 cccgtctgta caaagatggc tgccacattg gcgctgtcat tttggtactg agcagagcga
       61 cgggcttaat tcgacccaat ccaggccaga gtctttctct caggggcttc ctcgtgctca
      121 gctaatcctc cgatcaatcc ttgggaatcc ctgggacctc ttcggtatcc ctactctcag
      181 ccagggatca tgtcttgggc cgctcgcccg cccttcctcc ctcagcggca tgccgcaggg
      241 cagtgtgggc cggtgggggt gcgaaaagaa atgcattgtg gggtcgcgtc ccggtggcgg
      301 cggcgacggc cctggctgga tcccgcagcg gcggcggcgg cggcggtggc aggcggagaa
      361 caacaaaccc cggagccgga gccaggggag gctggacggg acgggatggg cgacagcggg
      421 cgggactccc gaagcccaga cagctcctcc ccaaatcccc ttccccaggg agtccctccc
      481 ccttctcctc ctgggccacc cctaccccct tcaacagctc catcccttgg aggctctggg
      541 gccccacccc cacccccgat gccaccaccc ccactgggct ctccctttcc agtcatcagt
      601 tcttccatgg ggtcccctgg tctgccccct ccagctcccc caggattctc cgggcctgtc
      661 agcagccccc agattaactc aacagtgtca ctccctgggg gtgggtctgg cccccctgaa
      721 gatgtgaagc caccagtctt aggggtccgg ggcctgcact gtccaccccc tccaggtggc
      781 cctggggctg gcaaacggct atgtgcaatc tgcggggaca gaagctcagg caaacactac
      841 ggggtttaca gctgtgaggg ttgcaagggc ttcttcaaac gcaccatccg caaagacctt
      901 acatactctt gccgggacaa caaagactgc acagtggaca agcgccagcg gaaccgctgt
      961 cagtactgcc gctatcagaa gtgcctggcc actggcatga agagggaggc ggtacaggag
     1021 gagcgtcagc ggggaaagga caaggatggg gatggggagg gggctggggg agcccccgag
     1081 gagatgcctg tggacaggat cctggaggca gagcttgctg tggaacagaa gagtgaccag
     1141 ggcgttgagg gtcctggggg aaccgggggt agcggcagca gcccaaatga ccctgtgact
     1201 aacatctgtc aggcagctga caaacagcta ttcacgcttg ttgagtgggc gaagaggatc
     1261 ccacactttt cctccttgcc tctggatgat caggtcatat tgctgcgggc aggctggaat
     1321 gaactcctca ttgcctcctt ctcacaccga tccattgatg ttcgagatgg catcctcctt
     1381 gccacaggtc ttcacgtgca ccgcaactca gcccattcag caggagtagg agccatcttt
     1441 gatcgggtgc tgacagagct agtgtccaaa atgcgtgaca tgaggatgga caagacagag
     1501 cttggctgcc tgagggcaat cattctgttt aatccagatg ccaagggcct ctccaaccct
     1561 agtgaggtgg aggtcctgcg ggagaaagtg tatgcatcac tggagaccta ctgcaaacag
     1621 aagtaccctg agcagcaggg acggtttgcc aagctgctgc tacgtcttcc tgccctccgg
     1681 tccattggcc ttaagtgtct agagcatctg tttttcttca agctcattgg tgacaccccc
     1741 atcgacacct tcctcatgga gatgcttgag gctccccatc aactggcctg agctcagacc
     1801 cagacgtggt gcttctcaca ctggaggagc acacatccaa gagggactcc aagccctggg
     1861 gcagggtggg gggccatgtt cccagaacct tgatggggtg agaagtacag ggcagaacca
     1921 agaacataaa ccctccaagg gatctgcttg atatcccaag ttggaaggga ccccagatac
     1981 ctgtgaggac tggttgtctc tcttcggtgg ccttgagtct ctgaatttgt cgggttctcc
     2041 catgatttgg ggtgatttct caccctctgt ccttccccca gcacaaagca ctggccttgc
     2101 ctccaggacc ttgcttcctt ctcatcttgc ctcattttgc ttcccatctg aagagtggaa
     2161 atggggaact cccccagagg tggatactgg ggggcaggcc tcccaagctg atggacatga
     2221 gagtagggcc ctgacaggcc ttcctcctct caaacctggc agatgggggc ctctctggaa
     2281 gagggagggg ccctgtcact gtccagagtc tctttttaca cttcacctcc ttctgcagtc
     2341 agactgaaat ataaaaaagg tggtggtggt ggtgaagggg ctggtggaga tgtaggaacc
     2401 gatctgctat ttttaatttc ctgtgaggat agagacttgc agttagactc aaagaagtac
     2461 tgtactttcc caggttgact aagaaatgcc agtggtggag gtgggtgttt gggaaaggca
     2521 gggccctgaa atggcctgtc cctagggctc tccaagcact agccttccca gcttcccgcc
     2581 gcccccccta tctcttcctg tctaacttgg ggaaggggcc tgggctgtga ggacagggcc
     2641 cccacagggg atggtttcac gagtgtagtc ccggaggcct tccctttaca gctctcctcc
     2701 agccctgggc acatagcata ggctggggac acaggatcct ggcctgagaa ttgaggggag
     2761 gtggccagcc cgcagaggtg gggtgctggg gctgcatgat ttttgccctg cgtcccttct
     2821 ctttggggct cctttcccct ctcatacata aaatcgcttt caaattaaaa tcgctgtttt
     2881 ctgga
//
