LOCUS       NM_001399629            2272 bp    mRNA    linear   ROD 12-NOV-2024
DEFINITION  Rattus norvegicus SWI/SNF related BAF chromatin remodeling complex
            subunit E1 (Smarce1), transcript variant 1, mRNA.
ACCESSION   NM_001399629 XM_017597317
VERSION     NM_001399629.1
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 2272)
  AUTHORS   Louvrier,C., Pasmant,E., Briand-Suleau,A., Cohen,J., Nitschke,P.,
            Nectoux,J., Orhant,L., Zordan,C., Goizet,C., Goutagny,S.,
            Lallemand,D., Vidaud,M., Vidaud,D., Kalamarides,M. and Parfait,B.
  TITLE     Targeted next-generation sequencing for differential diagnosis of
            neurofibromatosis type 2, schwannomatosis, and meningiomatosis
  JOURNAL   Neuro Oncol 20 (7), 917-929 (2018)
   PUBMED   29409008
REFERENCE   2  (bases 1 to 2272)
  AUTHORS   Singh,A.P. and Archer,T.K.
  TITLE     Analysis of the SWI/SNF chromatin-remodeling complex during early
            heart development and BAF250a repression cardiac gene transcription
            during P19 cell differentiation
  JOURNAL   Nucleic Acids Res 42 (5), 2958-2975 (2014)
   PUBMED   24335282
REFERENCE   3  (bases 1 to 2272)
  AUTHORS   Shain,A.H. and Pollack,J.R.
  TITLE     The spectrum of SWI/SNF mutations, ubiquitous in human cancers
  JOURNAL   PLoS One 8 (1), e55119 (2013)
   PUBMED   23355908
REFERENCE   4  (bases 1 to 2272)
  AUTHORS   Dhar,S., Thota,A. and Rao,M.R.
  TITLE     Insights into role of bromodomain, testis-specific (Brdt) in
            acetylated histone H4-dependent chromatin remodeling in mammalian
            spermiogenesis
  JOURNAL   J Biol Chem 287 (9), 6387-6405 (2012)
   PUBMED   22215678
  REMARK    GeneRIF: The N terminus of Brdt is involved in the recognition of
            Smarce1 as well as in the reorganization of hyperacetylated round
            spermatid chromatin.
REFERENCE   5  (bases 1 to 2272)
  AUTHORS   Rapicavoli,N.A., Poth,E.M., Zhu,H. and Blackshaw,S.
  TITLE     The long noncoding RNA Six3OS acts in trans to regulate retinal
            development by modulating Six3 activity
  JOURNAL   Neural Dev 6, 32 (2011)
   PUBMED   21936910
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 2272)
  AUTHORS   Battaglioli,E., Andres,M.E., Rose,D.W., Chenoweth,J.G.,
            Rosenfeld,M.G., Anderson,M.E. and Mandel,G.
  TITLE     REST repression of neuronal genes requires components of the
            hSWI.SNF complex
  JOURNAL   J Biol Chem 277 (43), 41038-41045 (2002)
   PUBMED   12192000
REFERENCE   7  (bases 1 to 2272)
  AUTHORS   Otsuki,T., Furukawa,Y., Ikeda,K., Endo,H., Yamashita,T.,
            Shinohara,A., Iwamatsu,A., Ozawa,K. and Liu,J.M.
  TITLE     Fanconi anemia protein, FANCA, associates with BRG1, a component of
            the human SWI/SNF complex
  JOURNAL   Hum Mol Genet 10 (23), 2651-2660 (2001)
   PUBMED   11726552
REFERENCE   8  (bases 1 to 2272)
  AUTHORS   Xue,Y., Canman,J.C., Lee,C.S., Nie,Z., Yang,D., Moreno,G.T.,
            Young,M.K., Salmon,E.D. and Wang,W.
  TITLE     The human SWI/SNF-B chromatin-remodeling complex is related to
            yeast rsc and localizes at kinetochores of mitotic chromosomes
  JOURNAL   Proc Natl Acad Sci U S A 97 (24), 13015-13020 (2000)
   PUBMED   11078522
REFERENCE   9  (bases 1 to 2272)
  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 2272)
  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     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000010.1.
            
            On Jan 12, 2022 this sequence version replaced XM_017597317.2.
            
            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 :: BC091314.1, SRR26643288.43193.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN16676810 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-45                JAXUCZ010000010.1  84676129-84676173   c
            46-97               JAXUCZ010000010.1  84674246-84674297   c
            98-141              JAXUCZ010000010.1  84674026-84674069   c
            142-246             JAXUCZ010000010.1  84670866-84670970   c
            247-327             JAXUCZ010000010.1  84666520-84666600   c
            328-459             JAXUCZ010000010.1  84665619-84665750   c
            460-631             JAXUCZ010000010.1  84665182-84665353   c
            632-804             JAXUCZ010000010.1  84660562-84660734   c
            805-906             JAXUCZ010000010.1  84659778-84659879   c
            907-1117            JAXUCZ010000010.1  84659006-84659216   c
            1118-2272           JAXUCZ010000010.1  84655468-84656622   c
FEATURES             Location/Qualifiers
     source          1..2272
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="10"
                     /map="10q31"
     gene            1..2272
                     /gene="Smarce1"
                     /gene_synonym="BAF57; RGD1304726"
                     /note="SWI/SNF related BAF chromatin remodeling complex
                     subunit E1"
                     /db_xref="GeneID:303518"
                     /db_xref="RGD:1304726"
     exon            1..45
                     /gene="Smarce1"
                     /gene_synonym="BAF57; RGD1304726"
                     /inference="alignment:Splign:2.1.0"
     exon            46..97
                     /gene="Smarce1"
                     /gene_synonym="BAF57; RGD1304726"
                     /inference="alignment:Splign:2.1.0"
     CDS             91..1326
                     /gene="Smarce1"
                     /gene_synonym="BAF57; RGD1304726"
                     /note="isoform 1 is encoded by transcript variant 1;
                     SWI/SNF-related matrix-associated actin-dependent
                     regulator of chromatin subfamily E member 1;
                     BRG1-associated factor 57; SWI/SNF related, matrix
                     associated, actin dependent regulator of chromatin,
                     subfamily e, member 1"
                     /codon_start=1
                     /product="SWI/SNF-related matrix-associated
                     actin-dependent regulator of chromatin subfamily E member
                     1 isoform 1"
                     /protein_id="NP_001386558.1"
                     /db_xref="GeneID:303518"
                     /db_xref="RGD:1304726"
                     /translation="MSKRPSYAPPPTPAPATQMPSTPGFVGYNPYSHLAYNNYRLGGN
                     PGTNSRVTASSGITIPKPPKPPDKPLMPYMRYSRKVWDQVKASNPDLKLWEIGKIIGG
                     MWRDLTDEEKQEYLNEYEAEKIEYNESMKAYHNSPAYLAYINAKSRAEAALEEESRQR
                     QSRMEKGEPYMSIQPAEDPDDYDDGFSMKHTATARFQRNHRLISEILSESVVPDVRSV
                     VTTARMQVLKRQVQSLMVHQRKLEAELLQIEERHQEKKRKFLESTDSFNNELKRLCGL
                     KVEVDMEKIAAEIAQAEEQARKRQEEREKEAAEQAERSQGSIAPEEEQVANKAEEKKD
                     EENIPMETEETHLEDTAENQQNGEEGTSTPEDKESGQEGVDSMEVEGTSDSNTGSESN
                     SATVEEPPTDPVPEDEKKE"
     exon            98..141
                     /gene="Smarce1"
                     /gene_synonym="BAF57; RGD1304726"
                     /inference="alignment:Splign:2.1.0"
     exon            142..246
                     /gene="Smarce1"
                     /gene_synonym="BAF57; RGD1304726"
                     /inference="alignment:Splign:2.1.0"
     exon            247..327
                     /gene="Smarce1"
                     /gene_synonym="BAF57; RGD1304726"
                     /inference="alignment:Splign:2.1.0"
     exon            328..459
                     /gene="Smarce1"
                     /gene_synonym="BAF57; RGD1304726"
                     /inference="alignment:Splign:2.1.0"
     exon            460..631
                     /gene="Smarce1"
                     /gene_synonym="BAF57; RGD1304726"
                     /inference="alignment:Splign:2.1.0"
     exon            632..804
                     /gene="Smarce1"
                     /gene_synonym="BAF57; RGD1304726"
                     /inference="alignment:Splign:2.1.0"
     exon            805..906
                     /gene="Smarce1"
                     /gene_synonym="BAF57; RGD1304726"
                     /inference="alignment:Splign:2.1.0"
     exon            907..1117
                     /gene="Smarce1"
                     /gene_synonym="BAF57; RGD1304726"
                     /inference="alignment:Splign:2.1.0"
     exon            1118..2272
                     /gene="Smarce1"
                     /gene_synonym="BAF57; RGD1304726"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 aaagggaagc gaagccggag ctgcgggcgc cttctcggcc cgcggtgtct cagattcatt
       61 cttaaggaac tgagaactta atcttccaaa atgtcaaaaa gaccatctta tgccccacct
      121 cccaccccag ctcctgcaac acaaatgccc agcacaccag ggtttgtggg atacaatcca
      181 tacagtcatc tcgcctacaa caactacagg ctgggaggga acccgggcac caacagccgg
      241 gtcacggcgt cctccggcat tacaatccca aagcctccaa agccaccaga taagccgctc
      301 atgccctaca tgaggtacag cagaaaggtc tgggaccaag taaaggcttc caaccctgac
      361 ctaaagttgt gggagattgg caagattatt ggtggcatgt ggcgagatct cactgatgaa
      421 gagaaacaag aatatttaaa cgagtacgaa gcagaaaaga tagagtacaa tgaatctatg
      481 aaggcctatc acaattcccc tgcatacctt gcatatatta atgcaaaaag tcgtgcggaa
      541 gctgcattag aggaagaaag tcgacagaga cagtcgcgca tggagaaagg agagccttac
      601 atgagcattc agcctgcgga ggacccagac gattatgatg acggcttttc aatgaagcat
      661 acagccactg cccgtttcca gagaaaccac cgcctcatca gtgagatcct cagtgagagt
      721 gtggtacctg atgtgcggtc ggttgtcaca acagctagaa tgcaagtcct caagcgacag
      781 gtccagtctt taatggttca tcagcggaaa ctagaagccg agcttcttca gatagaggaa
      841 cgacaccagg aaaagaagag gaaattcctg gaaagcacag actcctttaa caatgagctt
      901 aaaaggctgt gtggtctgaa ggtggaagtg gacatggaga agattgcagc agagatcgca
      961 caggcggagg agcaggcccg caaaaggcag gaggagaggg agaaggaggc agccgagcaa
     1021 gctgagcgca gccagggcag catcgccccc gaggaagagc aagtggcgaa caaagccgag
     1081 gagaagaagg atgaggagaa catcccgatg gagacagagg agacacacct tgaagacact
     1141 gcggagaacc agcagaatgg tgaagaaggc acatctactc ctgaggacaa ggagagtggg
     1201 caggaggggg ttgacagcat ggaggtggaa gggaccagtg acagtaacac cggctcagag
     1261 agcaacagcg caacggtgga ggagccgccc acggaccctg tgccagaaga cgagaagaag
     1321 gaataaatgt tgccttgttt tatgtgacct aaaacttttt ttaaatgaaa aaaaaaatgt
     1381 gttttttttg gttttaatgg tgttatgtgg tctgtgtatt atttccattg ataccgtgaa
     1441 ggtcttcaat agcatagcct aatgccatct gctcaccttt cttagctctc aacttctgaa
     1501 acctcagaac tgagatcagt cgagagaccc atctctttga gaaccacttg gatgctgcag
     1561 aatctgctct tccaaatgcc ttccttcagc tcacttgggt gctcatcaaa gccatagctt
     1621 taacccctcc cagaccaact acagctctcc gagtcccctg tcgtgtgtat ttatacagag
     1681 tgccctcttt atctctgata tcagacacca ggcatcctct tacagggtag ggtgtagcct
     1741 gaaaccagcg aaacacagat gagactgtgc agagatggcc ctggaggggc cgggggagta
     1801 gttactgctg tggattctca ttaggtgagc cctgcacgtg catatccata tctgtgcagt
     1861 tattatggga tgtgttctgg gaaattcatc cttattgtac agggggaaaa gaaatgtgtt
     1921 tttaccagat tggttttcca aagacatgat agacagcaga gcctaaggaa tgggatattc
     1981 ttataatgga ctgcagactt caaagtgatt ggcctattgc aaaaggaaaa caggaactac
     2041 gttcatccac ttgagcatac ttcatagtga tgaaaacctc aaggctcgag atcccataga
     2101 tcagagccga acctactttt ttgataagcc ctttagtggt gttagagact agatatgaga
     2161 tagtttgtag tgcgtgctct ctgatatcta gaatagattt ttactgaata gtggtatata
     2221 tgatgttata tgtttcttaa aggcccaaac ataataaaga aattaagaca aa
//
