LOCUS       NM_001270958            2366 bp    mRNA    linear   ROD 31-MAR-2024
DEFINITION  Rattus norvegicus RAR-related orphan receptor B (Rorb), mRNA.
ACCESSION   NM_001270958 XM_219749
VERSION     NM_001270958.1
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 2366)
  AUTHORS   Rudolf,G., Lesca,G., Mehrjouy,M.M., Labalme,A., Salmi,M., Bache,I.,
            Bruneau,N., Pendziwiat,M., Fluss,J., de Bellescize,J., Scholly,J.,
            Moller,R.S., Craiu,D., Tommerup,N., Valenti-Hirsch,M.P.,
            Schluth-Bolard,C., Sloan-Bena,F., Helbig,K.L., Weckhuysen,S.,
            Edery,P., Coulbaut,S., Abbas,M., Scheffer,I.E., Tang,S.,
            Myers,C.T., Stamberger,H., Carvill,G.L., Shinde,D.N., Mefford,H.C.,
            Neagu,E., Huether,R., Lu,H.M., Dica,A., Cohen,J.S., Iliescu,C.,
            Pomeran,C., Rubenstein,J., Helbig,I., Sanlaville,D., Hirsch,E. and
            Szepetowski,P.
  TITLE     Loss of function of the retinoid-related nuclear receptor (RORB)
            gene and epilepsy
  JOURNAL   Eur J Hum Genet 24 (12), 1761-1770 (2016)
   PUBMED   27352968
REFERENCE   2  (bases 1 to 2366)
  AUTHORS   Liu,H., Kim,S.Y., Fu,Y., Wu,X., Ng,L., Swaroop,A. and Forrest,D.
  TITLE     An isoform of retinoid-related orphan receptor beta directs
            differentiation of retinal amacrine and horizontal interneurons
  JOURNAL   Nat Commun 4, 1813 (2013)
   PUBMED   23652001
REFERENCE   3  (bases 1 to 2366)
  AUTHORS   Roforth,M.M., Liu,G., Khosla,S. and Monroe,D.G.
  TITLE     Examination of nuclear receptor expression in osteoblasts reveals
            Rorbeta as an important regulator of osteogenesis
  JOURNAL   J Bone Miner Res 27 (4), 891-901 (2012)
   PUBMED   22189870
REFERENCE   4  (bases 1 to 2366)
  AUTHORS   Jia,L., Oh,E.C., Ng,L., Srinivas,M., Brooks,M., Swaroop,A. and
            Forrest,D.
  TITLE     Retinoid-related orphan nuclear receptor RORbeta is an early-acting
            factor in rod photoreceptor development
  JOURNAL   Proc Natl Acad Sci U S A 106 (41), 17534-17539 (2009)
   PUBMED   19805139
REFERENCE   5  (bases 1 to 2366)
  AUTHORS   Hirokawa,J., Watakabe,A., Ohsawa,S. and Yamamori,T.
  TITLE     Analysis of area-specific expression patterns of RORbeta, ER81 and
            Nurr1 mRNAs in rat neocortex by double in situ hybridization and
            cortical box method
  JOURNAL   PLoS One 3 (9), e3266 (2008)
   PUBMED   18815614
  REMARK    GeneRIF: RORbeta, ER81 and Nurr1 are expressed in rat neocortex
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 2366)
  AUTHORS   Andre,E., Gawlas,K. and Becker-Andre,M.
  TITLE     A novel isoform of the orphan nuclear receptor RORbeta is
            specifically expressed in pineal gland and retina
  JOURNAL   Gene 216 (2), 277-283 (1998)
   PUBMED   9729429
REFERENCE   7  (bases 1 to 2366)
  AUTHORS   Park,H.T., Baek,S.Y., Kim,B.S., Kim,J.B. and Kim,J.J.
  TITLE     Developmental expression of 'RZR beta, a putative nuclear-melatonin
            receptor' mRNA in the suprachiasmatic nucleus of the rat
  JOURNAL   Neurosci Lett 217 (1), 17-20 (1996)
   PUBMED   8905729
REFERENCE   8  (bases 1 to 2366)
  AUTHORS   Becker-Andre,M., Wiesenberg,I., Schaeren-Wiemers,N., Andre,E.,
            Missbach,M., Saurat,J.H. and Carlberg,C.
  TITLE     Pineal gland hormone melatonin binds and activates an orphan of the
            nuclear receptor superfamily
  JOURNAL   J Biol Chem 269 (46), 28531-28534 (1994)
   PUBMED   7961794
  REMARK    Erratum:[J Biol Chem 1997 Jun 27;272(26):16707]
REFERENCE   9  (bases 1 to 2366)
  AUTHORS   Carlberg,C., Hooft van Huijsduijnen,R., Staple,J.K.,
            DeLamarter,J.F. and Becker-Andre,M.
  TITLE     RZRs, a new family of retinoid-related orphan receptors that
            function as both monomers and homodimers
  JOURNAL   Mol Endocrinol 8 (6), 757-770 (1994)
   PUBMED   7935491
REFERENCE   10 (bases 1 to 2366)
  AUTHORS   Becker-Andre,M., Andre,E. and DeLamarter,J.F.
  TITLE     Identification of nuclear receptor mRNAs by RT-PCR amplification of
            conserved zinc-finger motif sequences
  JOURNAL   Biochem Biophys Res Commun 194 (3), 1371-1379 (1993)
   PUBMED   7916608
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000001.1.
            
            On Aug 15, 2012 this sequence version replaced XM_219749.6.
            
            Summary: The protein encoded by this gene is a member of the NR1
            subfamily of nuclear hormone receptors. It is a DNA-binding protein
            that can bind as a monomer or as a homodimer to hormone response
            elements upstream of several genes to enhance the expression of
            those genes. The encoded protein has been shown to interact with
            NM23-2, a nucleoside diphosphate kinase involved in organogenesis
            and differentiation, and to help regulate the expression of some
            genes involved in circadian rhythm. [provided by RefSeq, Feb 2014].
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on 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 :: SRR26643298.7456.1,
                                           SRR26360194.1603623.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760383,
                                           SAMEA5760393 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-632               JAXUCZ010000001.1  225970342-225970973 c
            633-718             JAXUCZ010000001.1  225846837-225846922 c
            719-860             JAXUCZ010000001.1  225836615-225836756 c
            861-1262            JAXUCZ010000001.1  225830219-225830620 c
            1263-1384           JAXUCZ010000001.1  225814621-225814742 c
            1385-1517           JAXUCZ010000001.1  225812902-225813034 c
            1518-1625           JAXUCZ010000001.1  225809581-225809688 c
            1626-1736           JAXUCZ010000001.1  225807445-225807555 c
            1737-1849           JAXUCZ010000001.1  225804551-225804663 c
            1850-2366           JAXUCZ010000001.1  225790216-225790732 c
FEATURES             Location/Qualifiers
     source          1..2366
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="1"
                     /map="1q51"
     gene            1..2366
                     /gene="Rorb"
                     /note="RAR-related orphan receptor B"
                     /db_xref="GeneID:309288"
                     /db_xref="RGD:1306778"
     exon            1..632
                     /gene="Rorb"
                     /inference="alignment:Splign:2.1.0"
     CDS             626..2005
                     /gene="Rorb"
                     /note="nuclear receptor RZR-beta; retinoid-related orphan
                     receptor-beta; nuclear receptor subfamily 1 group F member
                     2; RAR-related orphan receptor beta; transcription factor"
                     /codon_start=1
                     /product="nuclear receptor ROR-beta"
                     /protein_id="NP_001257887.1"
                     /db_xref="GeneID:309288"
                     /db_xref="RGD:1306778"
                     /translation="MRAQIEVIPCKICGDKSSGIHYGVITCEGCKGFFRRSQQNNASY
                     SCPRQRNCLIDRTNRNRCQHCRLQKCLALGMSRDAVKFGRMSKKQRDSLYAEVQKHQQ
                     RLQEQRQQQSGEAEALARVYSSSISNGLSNLNTETGGTYANGHVIDLPKSEGYYNIDS
                     GQPSPDQSGLDMTGIKQIKQEPIYDLTSVPNLFTYSSFNNGQLAPGITMSEIDRIAQN
                     IIKSHLETCQYTMEELHQLAWQTHTYEEIKAYQSKSREALWQQCAIQITHAIQYVVEF
                     AKRITGFMELCQNDQILLLKSGCLEVVLVRMCRAFNPLNNTVLFEGKYGGMQMFKALG
                     SDDLVNEAFDFAKNLCSLQLTEEEIALFSSAVLISPDRAWLLEPRKVQKLQEKIYFAL
                     QHVIQKNHLDDETLAKLIAKIPTITAVCNLHGEKLQVFKQSHPDIVNTLFPPLYKELF
                     NPDCAAVCK"
     exon            633..718
                     /gene="Rorb"
                     /inference="alignment:Splign:2.1.0"
     exon            719..860
                     /gene="Rorb"
                     /inference="alignment:Splign:2.1.0"
     exon            861..1262
                     /gene="Rorb"
                     /inference="alignment:Splign:2.1.0"
     exon            1263..1384
                     /gene="Rorb"
                     /inference="alignment:Splign:2.1.0"
     exon            1385..1517
                     /gene="Rorb"
                     /inference="alignment:Splign:2.1.0"
     exon            1518..1625
                     /gene="Rorb"
                     /inference="alignment:Splign:2.1.0"
     exon            1626..1736
                     /gene="Rorb"
                     /inference="alignment:Splign:2.1.0"
     exon            1737..1849
                     /gene="Rorb"
                     /inference="alignment:Splign:2.1.0"
     exon            1850..2366
                     /gene="Rorb"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 ctctcttgct cccttcctct ctgcaactga acagtgaaat ttcacattgt ggatccgcta
       61 acaggcacag atgtcatgtg aaagcgcaca tgctctgcca tccatgccgc ctttctttct
      121 ttcctgtttc ctttttttca ccccttgata attctccctc ttctttgtaa ctaacaaaac
      181 caccaccaac tcctcctcct gccgctgccc ttctcctcct cctcagtcta agtgatcaca
      241 aaagaaatct ccgagcccga ggcggtggca tttttttttt tttaaagcaa gcacattgga
      301 gagaaagaaa aaagaaacaa acaaacaaac aaaagcaaaa caaaacccag gcaccagcca
      361 gctaggacat ttttttttcc acactgcctg aaaacaaaca aacagccatc agaaacagtc
      421 atcagcaaca gcatcaaaac tgttagctta gcggcggcgg ccaccgtcac cctgtggcca
      481 cgacatctgc ctaaagggat gcttctctca gcggagcagt tctacgccga ccgccttctt
      541 ccctcgtgct gagcgggatt tttgggttct ctggggttcg ggctgggagc ttcatgacta
      601 cacggagcag gacagcggcc acatcatgcg agcacaaatt gaagtgatac catgcaaaat
      661 ttgtggcgat aaatcctccg ggatccacta cggagtcatc acgtgtgaag gctgcaaggg
      721 attcttcagg aggagccagc agaacaatgc ctcttactcc tgcccaaggc agagaaactg
      781 tttaattgac agaaccaaca ggaaccgttg ccaacactgc cgcctgcaga agtgtcttgc
      841 cctaggaatg tcaagagatg ctgtgaagtt tgggaggatg tccaagaagc agcgggacag
      901 cctgtatgct gaggtgcaga agcatcagca gaggctgcag gagcagcggc agcagcagag
      961 tggggaggca gaggcccttg ccagggtgta cagcagcagc attagcaatg gcctcagcaa
     1021 cctgaacacc gagaccggcg gcacatacgc caacgggcac gtcattgacc tgcccaagtc
     1081 cgagggttac tacaacatag attccggtca accgtctccc gatcagtcag gactggacat
     1141 gactggaatc aaacagataa agcaagaacc tatctatgac ctcacatccg tacccaactt
     1201 gtttacctat agctctttca acaacgggca gttagctccc gggataacaa tgtctgagat
     1261 cgatcgaatt gcacagaaca tcattaagtc ccatttggag acgtgccagt acacaatgga
     1321 agagctccat cagctggcat ggcagaccca cacctatgag gaaataaagg catatcaaag
     1381 caagtccagg gaggctctgt ggcagcagtg tgccatccag atcacccacg ccatccaata
     1441 tgtggtggag ttcgcaaagc ggataacagg cttcatggag ctgtgtcaga acgatcagat
     1501 cttacttctg aagtcaggtt gcttggaagt ggttttagtg agaatgtgcc gtgccttcaa
     1561 cccattaaac aacactgttc tgtttgaagg aaaatatgga ggaatgcaaa tgttcaaagc
     1621 cttaggttct gatgacctag tgaatgaagc atttgacttt gcgaagaatc tgtgttcctt
     1681 gcagctgacc gaggaagaga ttgctctgtt ctcctctgct gttctgatat ccccagaccg
     1741 agcctggctg ttagaaccaa gaaaagtcca gaagcttcag gaaaaaattt attttgcact
     1801 tcaacatgtg attcagaaga atcacctgga tgatgagacc ctggcaaagt taatagccaa
     1861 gataccaact atcacggcag tctgcaactt gcatggggag aagctacagg tatttaagca
     1921 gtctcatcca gacatagtga atacactgtt tcctccattg tacaaggagc tctttaatcc
     1981 tgactgtgct gcggtctgca aatgaagggg acgagaactc tcagagtcat ggaatgcatc
     2041 gccgttaaga caaaagcaat gtgttcatgg ggacttaagg aaaatgtcac tactgcaaca
     2101 ttaggaatgt cctgcactta atagaaatat ttttcaccgc tacagtttga agaatgtaaa
     2161 tatgcacctg agtggggctc ttctgtttgt tcgtttgttg tttgtttgtt tttgaaatga
     2221 tcataaatat acaaatatag gacactgggt gttatctttt ttaattttat tcgggtatgt
     2281 tttggagaca actgtttata gaattttatt gtagatatat acaagaacag agccgtactt
     2341 tacacgatta cttttcccgt tgattg
//
