LOCUS       NM_003297               4058 bp    mRNA    linear   PRI 20-SEP-2024
DEFINITION  Homo sapiens nuclear receptor subfamily 2 group C member 1 (NR2C1),
            transcript variant 1, mRNA.
ACCESSION   NM_003297
VERSION     NM_003297.4
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 4058)
  AUTHORS   Liu,S., He,X., Di,Y., Li,Q., Li,F., Ma,Y., Chen,L., Gao,Y., Xu,J.,
            Yang,S., Xu,L., Corpe,C., Ling,Y., Zhang,X., Xu,J., Yu,W. and
            Wang,J.
  TITLE     NamiRNA-enhancer network of miR-492 activates the
            NR2C1-TGF-beta/Smad3 pathway to promote epithelial-mesenchymal
            transition of pancreatic cancer
  JOURNAL   Carcinogenesis 44 (2), 153-165 (2023)
   PUBMED   36591938
  REMARK    GeneRIF: NamiRNA-enhancer network of miR-492 activates the
            NR2C1-TGF-beta/Smad3 pathway to promote epithelial-mesenchymal
            transition of pancreatic cancer.
REFERENCE   2  (bases 1 to 4058)
  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   3  (bases 1 to 4058)
  AUTHORS   Yin,Y., Morgunova,E., Jolma,A., Kaasinen,E., Sahu,B.,
            Khund-Sayeed,S., Das,P.K., Kivioja,T., Dave,K., Zhong,F.,
            Nitta,K.R., Taipale,M., Popov,A., Ginno,P.A., Domcke,S., Yan,J.,
            Schubeler,D., Vinson,C. and Taipale,J.
  TITLE     Impact of cytosine methylation on DNA binding specificities of
            human transcription factors
  JOURNAL   Science 356 (6337) (2017)
   PUBMED   28473536
REFERENCE   4  (bases 1 to 4058)
  AUTHORS   Vaquerizas,J.M., Kummerfeld,S.K., Teichmann,S.A. and Luscombe,N.M.
  TITLE     A census of human transcription factors: function, expression and
            evolution
  JOURNAL   Nat Rev Genet 10 (4), 252-263 (2009)
   PUBMED   19274049
  REMARK    Review article
REFERENCE   5  (bases 1 to 4058)
  AUTHORS   Franco,P.J., Farooqui,M., Seto,E. and Wei,L.N.
  TITLE     The orphan nuclear receptor TR2 interacts directly with both class
            I and class II histone deacetylases
  JOURNAL   Mol Endocrinol 15 (8), 1318-1328 (2001)
   PUBMED   11463856
REFERENCE   6  (bases 1 to 4058)
  AUTHORS   Yu,Z., Lee,C.H., Chinpaisal,C. and Wei,L.N.
  TITLE     A constitutive nuclear localization signal from the second
            zinc-finger of orphan nuclear receptor TR2
  JOURNAL   J Endocrinol 159 (1), 53-60 (1998)
   PUBMED   9795341
REFERENCE   7  (bases 1 to 4058)
  AUTHORS   Lee,C.H., Chinpaisal,C. and Wei,L.N.
  TITLE     A novel nuclear receptor heterodimerization pathway mediated by
            orphan receptors TR2 and TR4
  JOURNAL   J Biol Chem 273 (39), 25209-25215 (1998)
   PUBMED   9737983
REFERENCE   8  (bases 1 to 4058)
  AUTHORS   Lin,D.L., Wu,S.Q. and Chang,C.
  TITLE     The genomic structure and chromosomal location of the human TR2
            orphan receptor, a member of the steroid receptor superfamily
  JOURNAL   Endocrine 8 (2), 123-134 (1998)
   PUBMED   9704569
REFERENCE   9  (bases 1 to 4058)
  AUTHORS   Chang,C., Kokontis,J., Acakpo-Satchivi,L., Liao,S., Takeda,H. and
            Chang,Y.
  TITLE     Molecular cloning of new human TR2 receptors: a class of steroid
            receptor with multiple ligand-binding domains
  JOURNAL   Biochem Biophys Res Commun 165 (2), 735-741 (1989)
   PUBMED   2597158
REFERENCE   10 (bases 1 to 4058)
  AUTHORS   Chang,C. and Kokontis,J.
  TITLE     Identification of a new member of the steroid receptor super-family
            by cloning and sequence analysis
  JOURNAL   Biochem Biophys Res Commun 155 (2), 971-977 (1988)
   PUBMED   3421977
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DB266298.1, AK291319.1,
            JQ308177.1 and AC011598.33.
            
            On Nov 22, 2018 this sequence version replaced NM_003297.3.
            
            Summary: This gene encodes a nuclear hormone receptor characterized
            by a highly conserved DNA binding domain (DBD), a variable hinge
            region, and a carboxy-terminal ligand binding domain (LBD) that is
            typical for all members of the steroid/thyroid hormone receptor
            superfamily. This protein also belongs to a large family of
            ligand-inducible transcription factors that regulate gene
            expression by binding to specific DNA sequences within promoters of
            target genes. Multiple alternatively spliced transcript variants
            have been described, but the full-length nature of some of these
            variants has not been determined. [provided by RefSeq, Jul 2008].
            
            Transcript Variant: This variant (1) represents the longest
            transcript and encodes the longest isoform (a, also known as
            TR2-11).
            
            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 :: SRR1660807.88917.1,
                                           SRR1660805.139632.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000333003.10/ ENSP00000333275.4
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-26                DB266298.1         11-36
            27-1118             AK291319.1         1-1092
            1119-2058           JQ308177.1         873-1812
            2059-4058           AC011598.33        77704-79703
FEATURES             Location/Qualifiers
     source          1..4058
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="12"
                     /map="12q22"
     gene            1..4058
                     /gene="NR2C1"
                     /gene_synonym="TR2"
                     /note="nuclear receptor subfamily 2 group C member 1"
                     /db_xref="GeneID:7181"
                     /db_xref="HGNC:HGNC:7971"
                     /db_xref="MIM:601529"
     exon            1..239
                     /gene="NR2C1"
                     /gene_synonym="TR2"
                     /inference="alignment:Splign:2.1.0"
     exon            240..300
                     /gene="NR2C1"
                     /gene_synonym="TR2"
                     /inference="alignment:Splign:2.1.0"
     CDS             247..2058
                     /gene="NR2C1"
                     /gene_synonym="TR2"
                     /note="isoform a is encoded by transcript variant 1; TR2
                     nuclear hormone receptor; orphan nuclear receptor TR2"
                     /codon_start=1
                     /product="nuclear receptor subfamily 2 group C member 1
                     isoform a"
                     /protein_id="NP_003288.2"
                     /db_xref="CCDS:CCDS9051.1"
                     /db_xref="GeneID:7181"
                     /db_xref="HGNC:HGNC:7971"
                     /db_xref="MIM:601529"
                     /translation="MATIEEIAHQIIEQQMGEIVTEQQTGQKIQIVTALDHNTQGKQF
                     ILTNHDGSTPSKVILARQDSTPGKVFLTTPDAAGVNQLFFTTPDLSAQHLQLLTDNSP
                     DQGPNKVFDLCVVCGDKASGRHYGAVTCEGCKGFFKRSIRKNLVYSCRGSKDCIINKH
                     HRNRCQYCRLQRCIAFGMKQDSVQCERKPIEVSREKSSNCAASTEKIYIRKDLRSPLT
                     ATPTFVTDSESTRSTGLLDSGMFMNIHPSGVKTESAVLMTSDKAESCQGDLSTLANVV
                     TSLANLGKTKDLSQNSNEMSMIESLSNDDTSLCEFQEMQTNGDVSRAFDTLAKALNPG
                     ESTACQSSVAGMEGSVHLITGDSSINYTEKEGPLLSDSHVAFRLTMPSPMPEYLNVHY
                     IGESASRLLFLSMHWALSIPSFQALGQENSISLVKAYWNELFTLGLAQCWQVMNVATI
                     LATFVNCLHNSLQQDKMSTERRKLLMEHIFKLQEFCNSMVKLCIDGYEYAYLKAIVLF
                     SPDHPSLENMEQIEKFQEKAYVEFQDYITKTYPDDTYRLSRLLLRLPALRLMNATITE
                     ELFFKGLIGNIRIDSVIPHILKMEPADYNSQIIGHSI"
     exon            301..531
                     /gene="NR2C1"
                     /gene_synonym="TR2"
                     /inference="alignment:Splign:2.1.0"
     exon            532..610
                     /gene="NR2C1"
                     /gene_synonym="TR2"
                     /inference="alignment:Splign:2.1.0"
     exon            611..790
                     /gene="NR2C1"
                     /gene_synonym="TR2"
                     /inference="alignment:Splign:2.1.0"
     exon            791..938
                     /gene="NR2C1"
                     /gene_synonym="TR2"
                     /inference="alignment:Splign:2.1.0"
     exon            939..1029
                     /gene="NR2C1"
                     /gene_synonym="TR2"
                     /inference="alignment:Splign:2.1.0"
     exon            1030..1211
                     /gene="NR2C1"
                     /gene_synonym="TR2"
                     /inference="alignment:Splign:2.1.0"
     exon            1212..1377
                     /gene="NR2C1"
                     /gene_synonym="TR2"
                     /inference="alignment:Splign:2.1.0"
     exon            1378..1499
                     /gene="NR2C1"
                     /gene_synonym="TR2"
                     /inference="alignment:Splign:2.1.0"
     exon            1500..1639
                     /gene="NR2C1"
                     /gene_synonym="TR2"
                     /inference="alignment:Splign:2.1.0"
     exon            1640..1777
                     /gene="NR2C1"
                     /gene_synonym="TR2"
                     /inference="alignment:Splign:2.1.0"
     exon            1778..1883
                     /gene="NR2C1"
                     /gene_synonym="TR2"
                     /inference="alignment:Splign:2.1.0"
     exon            1884..4058
                     /gene="NR2C1"
                     /gene_synonym="TR2"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2370..2375
                     /regulatory_class="polyA_signal_sequence"
                     /gene="NR2C1"
                     /gene_synonym="TR2"
                     /note="hexamer: AATAAA"
     polyA_site      2394
                     /gene="NR2C1"
                     /gene_synonym="TR2"
                     /note="major polyA site"
     regulatory      3982..3987
                     /regulatory_class="polyA_signal_sequence"
                     /gene="NR2C1"
                     /gene_synonym="TR2"
                     /note="hexamer: ATTAAA"
     polyA_site      4006
                     /gene="NR2C1"
                     /gene_synonym="TR2"
     regulatory      4034..4039
                     /regulatory_class="polyA_signal_sequence"
                     /gene="NR2C1"
                     /gene_synonym="TR2"
                     /note="hexamer: AATATA"
     polyA_site      4058
                     /gene="NR2C1"
                     /gene_synonym="TR2"
ORIGIN      
        1 gttgctaatg cgcaggcgct ggcgggatag cgcgccgccg agccgagaaa gaggtcacga
       61 actctgaccc cccagaaata cccaaacaca gaaagctctc tccgccgtga atctcgatcc
      121 cacatcccgt cggctttctt caacctctct tcccggagcg ccccccaatc cacgagtggc
      181 agccgcggga ctgtcgcgtc ggcgcccgac gccggagtca gcagggcgca aaagcgccgg
      241 tagatcatgg caaccataga agaaattgca catcaaatta ttgaacaaca gatgggagag
      301 attgttacag agcagcaaac tgggcagaaa atccagattg tgacagcact tgatcataat
      361 acccaaggca agcagttcat tctgacaaat cacgacggct ctactccaag caaagtcatt
      421 ctggccaggc aagattccac tccgggaaaa gttttcctta caactccaga tgcagcaggt
      481 gtcaaccagt tattttttac cactcctgat ctgtctgcac aacacctgca gctcctaaca
      541 gataattctc cagaccaagg accaaataag gtttttgatc tttgcgtagt atgtggagac
      601 aaagcatcag gacgtcatta tggagcagta acttgtgaag gctgcaaagg attttttaaa
      661 agaagcatcc gaaaaaattt agtatattca tgtcgaggat caaaggattg tattattaat
      721 aagcaccacc gaaaccgctg tcaatactgc aggttacaga gatgtattgc gtttggaatg
      781 aagcaagact ctgtccaatg tgaaagaaaa cccattgaag tatcacgaga aaaatcttcc
      841 aactgtgccg cttcaacaga aaaaatctat atccgaaagg accttcgtag cccattaact
      901 gcaactccaa cttttgtaac agatagtgaa agtacaaggt caacaggact gttagattca
      961 ggaatgttca tgaatattca tccatctgga gtaaaaactg agtcagctgt gctgatgaca
     1021 tcagataagg ctgaatcatg tcagggagat ttaagtacat tggccaatgt ggttacatca
     1081 ttagcgaatc ttggaaaaac taaagatctt tctcaaaata gtaatgaaat gtctatgatt
     1141 gaaagcttaa gcaatgatga tacctctttg tgtgaatttc aagaaatgca gaccaacggt
     1201 gatgtttcaa gggcatttga cactcttgca aaagcattga atcctggaga gagcacagcc
     1261 tgccagagct cagtagcggg catggaagga agtgtacacc taatcactgg agattcaagc
     1321 ataaattaca ccgaaaaaga ggggccactt ctcagcgatt cacatgtagc tttcaggctc
     1381 accatgcctt ctcctatgcc tgagtacctg aatgtgcact acattgggga gtctgcctcc
     1441 agactgctgt tcttatcaat gcactgggca ctttcgattc cttctttcca ggctctaggg
     1501 caagaaaaca gcatatcact ggtgaaagct tactggaatg aactttttac tcttggtctt
     1561 gcccagtgct ggcaagtgat gaatgtagca actatattag caacatttgt caattgtctt
     1621 cacaatagtc ttcaacaaga taaaatgtca acagaaagaa gaaaattatt gatggagcac
     1681 atcttcaaac tacaggagtt ttgtaacagc atggttaaac tctgcattga tggatacgaa
     1741 tatgcctacc tgaaggcaat agtactcttc agtccagatc atccaagcct agaaaacatg
     1801 gaacagatag agaaatttca ggaaaaggct tatgtggaat tccaagatta tataaccaaa
     1861 acatatccag atgacaccta caggttatcc agactactac tcagattgcc agctttaaga
     1921 ctgatgaatg ctaccatcac tgaagaattg tttttcaaag gtctcattgg caatatacga
     1981 attgacagtg ttatcccaca tattttgaaa atggagcctg cagattataa ctctcaaata
     2041 attggtcaca gcatttgaaa actgtgactg cagtgctgta aacttaactg ttctttgcca
     2101 gaacacaaga caccaaattg aactcactgc ttttgaggca tctggaaatt tttactttaa
     2161 aaagtaacca gaatccaagg tatttttatt ttagcttccc ttaagaattt ttgaagtgac
     2221 tgggcaggca gcagaaatta aatgaatttt tcttcctgat tcctttaaat gaatatgaaa
     2281 cactacaaat ttattcttgg tgaagatgat acctgaagct gtcacctctt gattatctaa
     2341 actaagcgct cattctattt tataaaacaa ataaattagt ctcttttttc tgaattgtgt
     2401 tctagtcata tttaacttca ttatgaacta gtaaaaatac ttaatggtca gaaatcccta
     2461 aggagttagt tccttgcatt ttactctgcc ataataattt ttgtttaatt accatatcaa
     2521 aataagatta ttttatgctt actggtataa tgacagtatt agaactatag gaaataattg
     2581 aatacatatt ttttgtcttc tctaaatatc atggtgtccc ttagcatata ctactctcat
     2641 tgctggcagt gagacaggcc attcatgatc ttaagagttg ccatttttaa tgtatattat
     2701 tagttacaag cactttatat agcagaaaat tgtttttgag aataagctag tgttgatatt
     2761 ttaatatttt tagcttactg ctcgtgtttt tgtttttgtt ttcgtttata gaggtgggtt
     2821 tcactgttgc ccaggctggt ctcaaactcc tgggctcaag tgatcctgcc tcagcctccc
     2881 aaagtactgg gattacaggc gcgtgccacc gtgcctggcc tactgctgtc tttgaaaata
     2941 atagagacta gccaggtgta gtggctcatg cctataatcc cagcactttg ggaggctgag
     3001 gcaggcagat tgcttgagct caggagttcg agaccagcct gggcaatata gcaagacctc
     3061 gtctctgtaa aaagaaagaa agtaataaag actaattgag cccaaaatgt ttcactattt
     3121 caaaaaagat atttaaattg ttgctctttc attccataaa aaggatctga tctctctccc
     3181 acttttctga cctgagttag agcttcccaa acctgtcatg tatgggtttt agccaatttc
     3241 ttttagatca ctaaaaaaac tcacccaata tgtcaaataa tggatttatc atagccagta
     3301 catgttctca aggcaagttt aaacattatt ttgaagctat tgataatttt ttaaaataaa
     3361 gaaatattca ctgatttttt tcactgtaaa gcacgggagg gctgctttaa caacagtata
     3421 agaatcagcc tgaagccttg ttactgctac aacaaattca ttttagactc ctcggatgtc
     3481 ttccacagta atttattctt ttagcaaacc tgatactgat aactgtttct ttgctttgat
     3541 ttcttgatga attattttgg tatgtttgtt gatttttaaa gcaaacacgg ataatgcact
     3601 cagagtacat tttttgtaaa gatttttgca atagaagaaa agtgaagttt ttgtggggat
     3661 gtggatttta ttgcttacta ctttatagta atcaaaagtt tgaaaatatc aacttacagt
     3721 ctttaccagt ttactaaggg aaactttttt ccctatttaa aacatgatct tagtcaacaa
     3781 ttttatttat aattatcagc taaattacat ttagtataat actcaaatgg aaaaatcagt
     3841 agtttatacc tttataaata cagtttagta agccaaggaa tcagggaaat aatcctttaa
     3901 aataatgtac taatagttaa gatgtttcag gtgttttttc tgattaaatt tgctactata
     3961 tttggaagac tttaaaacta tattaaaatg tgacttgcat tacaaatttc tgtgtcttac
     4021 cagtatattt gtaaatatat tattcatttt ccttttca
//
