LOCUS       NM_001003801            1907 bp    mRNA    linear   PRI 19-SEP-2024
DEFINITION  Homo sapiens SWI/SNF related BAF chromatin remodeling complex
            subunit D3 (SMARCD3), transcript variant 3, mRNA.
ACCESSION   NM_001003801
VERSION     NM_001003801.2
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 1907)
  AUTHORS   Xu,J., Li,X., Chen,W., Zhang,Z., Zhou,Y., Gou,Y., Lv,C.A., Jin,L.,
            Qiu,X., Ma,S., Wu,Q.Q., Liu,T., Mi,L., Yang,Z., Yu,T., Pan,X.,
            Feng,Y., Shan,P. and Meng,Z.X.
  TITLE     Myofiber Baf60c controls muscle regeneration by modulating
            Dkk3-mediated paracrine signaling
  JOURNAL   J Exp Med 220 (9) (2023)
   PUBMED   37284884
  REMARK    GeneRIF: Myofiber Baf60c controls muscle regeneration by modulating
            Dkk3-mediated paracrine signaling.
REFERENCE   2  (bases 1 to 1907)
  AUTHORS   Ferguson,L.P., Gatchalian,J., McDermott,M.L., Nakamura,M.,
            Chambers,K., Rajbhandari,N., Lytle,N.K., Rosenthal,S.B.,
            Hamilton,M., Albini,S., Wartenberg,M., Zlobec,I., Galvan,J.A.,
            Karamitopoulou,E., Vavinskaya,V., Wascher,A., Lowy,A.M.,
            Schurch,C.M., Puri,P.L., Bruneau,B.G., Hargreaves,D.C. and Reya,T.
  TITLE     Smarcd3 is an epigenetic modulator of the metabolic landscape in
            pancreatic ductal adenocarcinoma
  JOURNAL   Nat Commun 14 (1), 292 (2023)
   PUBMED   36653361
  REMARK    GeneRIF: Smarcd3 is an epigenetic modulator of the metabolic
            landscape in pancreatic ductal adenocarcinoma.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1907)
  AUTHORS   Zhao,G., Zhao,Y., Lu,H., Chang,Z., Liu,H., Wang,H., Liang,W.,
            Liu,Y., Zhu,T., Rom,O., Guo,Y., Chang,L., Yang,B.,
            Garcia-Barrio,M.T., Lin,J.D., Chen,Y.E. and Zhang,J.
  TITLE     BAF60c prevents abdominal aortic aneurysm formation through
            epigenetic control of vascular smooth muscle cell homeostasis
  JOURNAL   J Clin Invest 132 (21), e158309 (2022)
   PUBMED   36066968
  REMARK    GeneRIF: BAF60c prevents abdominal aortic aneurysm formation
            through epigenetic control of vascular smooth muscle cell
            homeostasis.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 1907)
  AUTHORS   Jiang,M., Wang,H., Chen,H. and Han,Y.
  TITLE     SMARCD3 is a potential prognostic marker and therapeutic target in
            CAFs
  JOURNAL   Aging (Albany NY) 12 (20), 20835-20861 (2020)
   PUBMED   33125346
  REMARK    GeneRIF: SMARCD3 is a potential prognostic marker and therapeutic
            target in CAFs.
REFERENCE   5  (bases 1 to 1907)
  AUTHORS   Alpsoy,A. and Dykhuizen,E.C.
  TITLE     Glioma tumor suppressor candidate region gene 1 (GLTSCR1) and its
            paralog GLTSCR1-like form SWI/SNF chromatin remodeling subcomplexes
  JOURNAL   J Biol Chem 293 (11), 3892-3903 (2018)
   PUBMED   29374058
REFERENCE   6  (bases 1 to 1907)
  AUTHORS   Phelan,M.L., Sif,S., Narlikar,G.J. and Kingston,R.E.
  TITLE     Reconstitution of a core chromatin remodeling complex from SWI/SNF
            subunits
  JOURNAL   Mol Cell 3 (2), 247-253 (1999)
   PUBMED   10078207
REFERENCE   7  (bases 1 to 1907)
  AUTHORS   Shanahan,F., Seghezzi,W., Parry,D., Mahony,D. and Lees,E.
  TITLE     Cyclin E associates with BAF155 and BRG1, components of the
            mammalian SWI-SNF complex, and alters the ability of BRG1 to induce
            growth arrest
  JOURNAL   Mol Cell Biol 19 (2), 1460-1469 (1999)
   PUBMED   9891079
REFERENCE   8  (bases 1 to 1907)
  AUTHORS   Ring,H.Z., Vameghi-Meyers,V., Wang,W., Crabtree,G.R. and Francke,U.
  TITLE     Five SWI/SNF-related, matrix-associated, actin-dependent regulator
            of chromatin (SMARC) genes are dispersed in the human genome
  JOURNAL   Genomics 51 (1), 140-143 (1998)
   PUBMED   9693044
REFERENCE   9  (bases 1 to 1907)
  AUTHORS   Wang,W., Cote,J., Xue,Y., Zhou,S., Khavari,P.A., Biggar,S.R.,
            Muchardt,C., Kalpana,G.V., Goff,S.P., Yaniv,M., Workman,J.L. and
            Crabtree,G.R.
  TITLE     Purification and biochemical heterogeneity of the mammalian SWI-SNF
            complex
  JOURNAL   EMBO J 15 (19), 5370-5382 (1996)
   PUBMED   8895581
REFERENCE   10 (bases 1 to 1907)
  AUTHORS   Wang,W., Xue,Y., Zhou,S., Kuo,A., Cairns,B.R. and Crabtree,G.R.
  TITLE     Diversity and specialization of mammalian SWI/SNF complexes
  JOURNAL   Genes Dev 10 (17), 2117-2130 (1996)
   PUBMED   8804307
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC005486.2, AY450430.1 and
            AC021097.5.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Jun 2, 2019 this sequence version replaced NM_001003801.1.
            
            Summary: The protein encoded by this gene is a member of the
            SWI/SNF family of proteins, whose members display helicase and
            ATPase activities and which are thought to regulate transcription
            of certain genes by altering the chromatin structure around those
            genes. The encoded protein is part of the large ATP-dependent
            chromatin remodeling complex SNF/SWI and has sequence similarity to
            the yeast Swp73 protein. Multiple alternatively spliced transcript
            variants have been found for this gene, but the biological validity
            of some variants has not been determined. [provided by RefSeq, Jul
            2008].
            
            Transcript Variant: This variant (3), also known as hBAF60c2, has
            an alternate 5' sequence, as compared to variant 1. The encoded
            isoform 2 has a longer and distinct N-terminus, as compared to
            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 :: AY450430.1, SRR14038192.3740555.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000262188.13/ ENSP00000262188.8
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-31                AC005486.2         149576-149606
            32-1714             AY450430.1         305-1987
            1715-1907           AC021097.5         2423-2615
FEATURES             Location/Qualifiers
     source          1..1907
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="7"
                     /map="7q36.1"
     gene            1..1907
                     /gene="SMARCD3"
                     /gene_synonym="BAF60C; CRACD3; Rsc6p"
                     /note="SWI/SNF related BAF chromatin remodeling complex
                     subunit D3"
                     /db_xref="GeneID:6604"
                     /db_xref="HGNC:HGNC:11108"
                     /db_xref="MIM:601737"
     exon            1..210
                     /gene="SMARCD3"
                     /gene_synonym="BAF60C; CRACD3; Rsc6p"
                     /inference="alignment:Splign:2.1.0"
     CDS             133..1584
                     /gene="SMARCD3"
                     /gene_synonym="BAF60C; CRACD3; Rsc6p"
                     /note="isoform 2 is encoded by transcript variant 3;
                     mammalian chromatin remodeling complex BRG1-associated
                     factor 60C; Swp73-like protein; chromatin remodeling
                     complex BAF60C subunit; SWI/SNF complex 60 kDa subunit C;
                     SWI/SNF related, matrix associated, actin dependent
                     regulator of chromatin, subfamily d, member 3; 60 kDa
                     BRG-1/Brm-associated factor subunit C"
                     /codon_start=1
                     /product="SWI/SNF-related matrix-associated
                     actin-dependent regulator of chromatin subfamily D member
                     3 isoform 2"
                     /protein_id="NP_001003801.1"
                     /db_xref="CCDS:CCDS34780.1"
                     /db_xref="GeneID:6604"
                     /db_xref="HGNC:HGNC:11108"
                     /db_xref="MIM:601737"
                     /translation="MAADEVAGGARKATKSKLFEFLVHGVRPGMPSGARMPHQGAPMG
                     PPGSPYMGSPAVRPGLAPAGMEPARKRAAPPPGQSQAQSQGQPVPTAPARSRSAKRRK
                     MADKILPQRIRELVPESQAYMDLLAFERKLDQTIMRKRVDIQEALKRPMKQKRKLRLY
                     ISNTFNPAKPDAEDSDGSIASWELRVEGKLLDDPSKQKRKFSSFFKSLVIELDKDLYG
                     PDNHLVEWHRTPTTQETDGFQVKRPGDLSVRCTLLLMLDYQPPQFKLDPRLARLLGLH
                     TQSRSAIVQALWQYVKTNRLQDSHDKEYINGDKYFQQIFDCPRLKFSEIPQRLTALLL
                     PPDPIVINHVISVDPSDQKKTACYDIDVEVEEPLKGQMSSFLLSTANQQEISALDSKI
                     HETIESINQLKIQRDFMLSFSRDPKGYVQDLLRSQSRDLKVMTDVAGNPEEERRAEFY
                     HQPWSQEAVSRYFYCKIQQRRQELEQSLVVRNT"
     exon            211..422
                     /gene="SMARCD3"
                     /gene_synonym="BAF60C; CRACD3; Rsc6p"
                     /inference="alignment:Splign:2.1.0"
     exon            423..465
                     /gene="SMARCD3"
                     /gene_synonym="BAF60C; CRACD3; Rsc6p"
                     /inference="alignment:Splign:2.1.0"
     exon            466..588
                     /gene="SMARCD3"
                     /gene_synonym="BAF60C; CRACD3; Rsc6p"
                     /inference="alignment:Splign:2.1.0"
     exon            589..711
                     /gene="SMARCD3"
                     /gene_synonym="BAF60C; CRACD3; Rsc6p"
                     /inference="alignment:Splign:2.1.0"
     exon            712..807
                     /gene="SMARCD3"
                     /gene_synonym="BAF60C; CRACD3; Rsc6p"
                     /inference="alignment:Splign:2.1.0"
     exon            808..909
                     /gene="SMARCD3"
                     /gene_synonym="BAF60C; CRACD3; Rsc6p"
                     /inference="alignment:Splign:2.1.0"
     exon            910..1071
                     /gene="SMARCD3"
                     /gene_synonym="BAF60C; CRACD3; Rsc6p"
                     /inference="alignment:Splign:2.1.0"
     exon            1072..1169
                     /gene="SMARCD3"
                     /gene_synonym="BAF60C; CRACD3; Rsc6p"
                     /inference="alignment:Splign:2.1.0"
     exon            1170..1305
                     /gene="SMARCD3"
                     /gene_synonym="BAF60C; CRACD3; Rsc6p"
                     /inference="alignment:Splign:2.1.0"
     exon            1306..1428
                     /gene="SMARCD3"
                     /gene_synonym="BAF60C; CRACD3; Rsc6p"
                     /inference="alignment:Splign:2.1.0"
     exon            1429..1530
                     /gene="SMARCD3"
                     /gene_synonym="BAF60C; CRACD3; Rsc6p"
                     /inference="alignment:Splign:2.1.0"
     exon            1531..1907
                     /gene="SMARCD3"
                     /gene_synonym="BAF60C; CRACD3; Rsc6p"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1693..1698
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SMARCD3"
                     /gene_synonym="BAF60C; CRACD3; Rsc6p"
                     /note="hexamer: ATTAAA"
     polyA_site      1714
                     /gene="SMARCD3"
                     /gene_synonym="BAF60C; CRACD3; Rsc6p"
                     /note="major polyA site"
     polyA_site      1907
                     /gene="SMARCD3"
                     /gene_synonym="BAF60C; CRACD3; Rsc6p"
ORIGIN      
        1 actccgctcg agtagaagtg tgagagagcc cagcaggact cagaggggag agttggagga
       61 aaaaaaaagg cagaaaaggg aaagaaagag gaagagagag agagagtgag aggagccgct
      121 gagcccaccc cgatggccgc ggacgaagtt gccggagggg cgcgcaaagc cacgaaaagc
      181 aaactttttg agtttctggt ccatggggtg cgccccggga tgccgtctgg agcccggatg
      241 ccccaccagg gggcgcccat gggccccccg ggctccccgt acatgggcag ccccgccgtg
      301 cgacccggcc tggcccccgc gggcatggag cccgcccgca agcgagcagc gcccccgccc
      361 gggcagagcc aggcacagag ccagggccag ccggtgccca ccgcccccgc gcggagccgc
      421 agtgccaaga ggaggaagat ggctgacaaa atcctccctc aaaggattcg ggagctggtc
      481 cccgagtccc aggcttacat ggacctcttg gcatttgaga ggaaactgga tcaaaccatc
      541 atgcggaagc gggtggacat ccaggaggct ctgaagaggc ccatgaagca aaagcggaag
      601 ctgcgactct atatctccaa cacttttaac cctgcgaagc ctgatgctga ggattccgac
      661 ggcagcattg cctcctggga gctacgggtg gaggggaagc tcctggatga tcccagcaaa
      721 cagaagcgga agttctcttc tttcttcaag agtttggtca tcgagctgga caaagatctt
      781 tatggccctg acaaccacct cgttgagtgg catcggacac ccacgaccca ggagacggac
      841 ggcttccagg tgaaacggcc tggggacctg agtgtgcgct gcacgctgct cctcatgctg
      901 gactaccagc ctccccagtt caaactggat ccccgcctag cccggctgct ggggctgcac
      961 acacagagcc gctcagccat tgtccaggcc ctgtggcagt atgtgaagac caacaggctg
     1021 caggactccc atgacaagga atacatcaat ggggacaagt atttccagca gatttttgat
     1081 tgtccccggc tgaagttttc tgagattccc cagcgcctca cagccctgct attgccccct
     1141 gacccaattg tcatcaacca tgtcatcagc gtggaccctt cagaccagaa gaagacggcg
     1201 tgctatgaca ttgacgtgga ggtggaggag ccattaaagg ggcagatgag cagcttcctc
     1261 ctatccacgg ccaaccagca ggagatcagt gctctggaca gtaagatcca tgagacgatt
     1321 gagtccataa accagctcaa gatccagagg gacttcatgc taagcttctc cagagacccc
     1381 aaaggctatg tccaagacct gctccgctcc cagagccggg acctcaaggt gatgacagat
     1441 gtagccggca accctgaaga ggagcgccgg gctgagttct accaccagcc ctggtcccag
     1501 gaggccgtca gtcgctactt ctactgcaag atccagcagc gcaggcagga gctggagcag
     1561 tcgctggttg tgcgcaacac ctaggagccc aaaaataagc agcacgacgg aactttcagc
     1621 cgtgtcccgg gccccagcat tttgccccgg gctccagcat cactcctctg ccaccttggg
     1681 gtgtggggct ggattaaaag tcattcatct gacagcagcc gtgtggtcat tggaaactgg
     1741 ggaggggagg gggagagaag gggaagggaa gaaggtgggg aggcagtggg tccctcggga
     1801 cgactcccca ttcccttccc ttggattctt ctccttactc aattttccct agacctaaaa
     1861 acagtttggc agaagacatg tttaataaca ttttcatatt taaaaaa
//
