LOCUS       NM_001100900            2954 bp    mRNA    linear   ROD 03-APR-2024
DEFINITION  Rattus norvegicus SS18 subunit of BAF chromatin remodeling complex
            (Ss18), mRNA.
ACCESSION   NM_001100900 XM_001073112 XM_341580
VERSION     NM_001100900.1
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 2954)
  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   2  (bases 1 to 2954)
  AUTHORS   Staahl,B.T., Tang,J., Wu,W., Sun,A., Gitler,A.D., Yoo,A.S. and
            Crabtree,G.R.
  TITLE     Kinetic analysis of npBAF to nBAF switching reveals exchange of
            SS18 with CREST and integration with neural developmental pathways
  JOURNAL   J Neurosci 33 (25), 10348-10361 (2013)
   PUBMED   23785148
REFERENCE   3  (bases 1 to 2954)
  AUTHORS   Barco,R., Hunt,L.B., Frump,A.L., Garcia,C.B., Benesh,A.,
            Caldwell,R.L. and Eid,J.E.
  TITLE     The synovial sarcoma SYT-SSX2 oncogene remodels the cytoskeleton
            through activation of the ephrin pathway
  JOURNAL   Mol Biol Cell 18 (10), 4003-4012 (2007)
   PUBMED   17686994
REFERENCE   4  (bases 1 to 2954)
  AUTHORS   Iwasaki,T., Koibuchi,N. and Chin,W.W.
  TITLE     Synovial sarcoma translocation (SYT) encodes a nuclear receptor
            coactivator
  JOURNAL   Endocrinology 146 (9), 3892-3899 (2005)
   PUBMED   15919756
REFERENCE   5  (bases 1 to 2954)
  AUTHORS   Clark,J., Rocques,P.J., Crew,A.J., Gill,S., Shipley,J., Chan,A.M.,
            Gusterson,B.A. and Cooper,C.S.
  TITLE     Identification of novel genes, SYT and SSX, involved in the
            t(X;18)(p11.2;q11.2) translocation found in human synovial sarcoma
  JOURNAL   Nat Genet 7 (4), 502-508 (1994)
   PUBMED   7951320
REFERENCE   6  (bases 1 to 2954)
  AUTHORS   Phelan,J.P.
  TITLE     Genetic variability and rodent models of human aging
  JOURNAL   Exp Gerontol 27 (2), 147-159 (1992)
   PUBMED   1521591
  REMARK    Review article
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000018.1.
            
            On or before Sep 13, 2008 this sequence version replaced
            XM_341580.3, XM_001073112.1.
            
            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.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR26360172.2186308.1,
                                           SRR22582416.1743751.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760383,
                                           SAMEA5760389 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-121               JAXUCZ010000018.1  6109793-6109913     c
            122-198             JAXUCZ010000018.1  6106360-6106436     c
            199-283             JAXUCZ010000018.1  6096730-6096814     c
            284-437             JAXUCZ010000018.1  6078442-6078595     c
            438-659             JAXUCZ010000018.1  6074091-6074312     c
            660-827             JAXUCZ010000018.1  6061769-6061936     c
            828-932             JAXUCZ010000018.1  6061028-6061132     c
            933-1025            JAXUCZ010000018.1  6057889-6057981     c
            1026-1148           JAXUCZ010000018.1  6056999-6057121     c
            1149-1282           JAXUCZ010000018.1  6054146-6054279     c
            1283-2954           JAXUCZ010000018.1  6047619-6049290     c
FEATURES             Location/Qualifiers
     source          1..2954
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="18"
                     /map="18p13"
     gene            1..2954
                     /gene="Ss18"
                     /note="SS18 subunit of BAF chromatin remodeling complex"
                     /db_xref="GeneID:361295"
                     /db_xref="RGD:1311919"
     exon            1..121
                     /gene="Ss18"
                     /inference="alignment:Splign:2.1.0"
     CDS             53..1309
                     /gene="Ss18"
                     /note="synovial sarcoma translocation, Chromosome 18;
                     SS18, nBAF chromatin remodeling complex subunit"
                     /codon_start=1
                     /product="protein SSXT"
                     /protein_id="NP_001094370.1"
                     /db_xref="GeneID:361295"
                     /db_xref="RGD:1311919"
                     /translation="MSVAFAAPRQRGKGEITPAAIQKMLDENNHLIQCIMDYQNKGKA
                     SECSQYQQILHTNLVYLATIADSNQNMQSLLPAPPTQNVPMGPGGMSQSGPPPPPRSH
                     SMPSDGMVGGGPPAPHMQNQMNGQMPGPNHMPMQGPGPSQLSMTNSSMNMPSSSHGSM
                     GGYNHSVPSSQSMPVQNQMTMSQGQPMGNYGPRPNMNMQPNQGPMMHQQPPSQQYSMP
                     PGGAQHYQGQQAPMGLMGQVNQGSHMMGQRQMPPYRPPQQGPPQQYSGQEDYYGDQYS
                     HGGQGPPEGMNQQYYPDGHNDYGYQQPSYPEQGYDRPYEESSPHYCEGGNSQYGQQQD
                     AYQGPPPQQGYPPQQQQYPGQQGYPGQQQGYGPTQGGPGPQYPNYPQGQGQQYGGYRP
                     TQPGPPQPPQQRPYGYDQGQYGNYQQ"
     exon            122..198
                     /gene="Ss18"
                     /inference="alignment:Splign:2.1.0"
     exon            199..283
                     /gene="Ss18"
                     /inference="alignment:Splign:2.1.0"
     exon            284..437
                     /gene="Ss18"
                     /inference="alignment:Splign:2.1.0"
     exon            438..659
                     /gene="Ss18"
                     /inference="alignment:Splign:2.1.0"
     exon            660..827
                     /gene="Ss18"
                     /inference="alignment:Splign:2.1.0"
     exon            828..932
                     /gene="Ss18"
                     /inference="alignment:Splign:2.1.0"
     exon            933..1025
                     /gene="Ss18"
                     /inference="alignment:Splign:2.1.0"
     exon            1026..1148
                     /gene="Ss18"
                     /inference="alignment:Splign:2.1.0"
     exon            1149..1282
                     /gene="Ss18"
                     /inference="alignment:Splign:2.1.0"
     exon            1283..2954
                     /gene="Ss18"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 tccgcggccc ccggagcgct cgggactcgc tgatcgcggg ctcggcggca atatgtctgt
       61 ggcgttcgca gccccgaggc agcggggcaa gggcgagatc acgcccgccg ccatccagaa
      121 gatgctggat gaaaataacc accttattca gtgtataatg gactatcaaa ataaagggaa
      181 ggcctcggag tgctctcagt accagcagat actgcataca aacctggtat accttgctac
      241 catagcagac tccaatcaaa atatgcagtc tctcctaccg gcgccgccta cacagaatgt
      301 gcctatgggt cctggaggga tgagtcagag tggccctcca ccccctcccc gctctcacag
      361 catgccttca gatggaatgg tgggtggggg ccctcctgca ccacacatgc agaaccagat
      421 gaacggccag atgcctgggc ctaaccatat gccaatgcag ggacctggac ccagtcagct
      481 cagcatgacg aacagctcca tgaatatgcc ttcgagtagc cacggctcca tgggaggcta
      541 caaccattct gtgccatcgt cccagagcat gcccgtgcag aaccagatga caatgagtca
      601 ggggcagcca atgggaaact atggtcccag accaaacatg aatatgcaac caaatcaagg
      661 tcccatgatg caccagcagc ctccttctca gcagtacagc atgccacctg gaggtgcgca
      721 gcattaccaa ggacagcagg cgcccatggg gctgatgggt caagttaacc aaggcagtca
      781 catgatgggc cagagacaga tgcctcccta tagacctcca caacagggcc caccacagca
      841 gtactcaggc caggaagact attatgggga ccaatacagt catggtggac aaggtcctcc
      901 agaaggcatg aaccagcaat attaccctga tggtcataat gattacggtt atcagcaacc
      961 gtcgtatcct gaacaaggct acgataggcc ttatgaggag tcctcaccac attactgcga
     1021 aggaggaaac tcgcagtacg gccagcagca ggacgcttac caaggaccac ctccacagca
     1081 aggataccca ccccagcagc agcagtaccc ggggcagcag ggctacccag gacagcagca
     1141 gggctacggt cctacccagg gcggtccagg gcctcagtat cctaattatc ctcagggtca
     1201 aggtcagcag tatgggggct atagaccaac acagccagga ccaccacagc caccgcagca
     1261 gaggccttat gggtacgacc agggacaata tggaaattac cagcagtgaa aatgtcctta
     1321 cattccaata gccagcacct attagcagcc acattgtcac agctctgcac cgtggacacc
     1381 cccggggaag gctccttcca ttccaactag tttttggaaa aacctttggc taaatggctg
     1441 cttcattggc aagtagcttt tatggtgtag tttctaaagg ctttcgtagc taccaacgca
     1501 cctgatttca cgtttctact ctagatggca acattggaca gaaaatgcac tgacacaagg
     1561 acttggcagc catttcaact gtgttccaaa tggactgtca cagactgaaa ggtgtgaaca
     1621 gttttgcgtg ttcacggagg ttgagggttt catacttttc cacagattat tttgtaaggg
     1681 gaaggggaaa tgtacacttt ctacagcagc catattttgt ctatatgttt atttcatgtg
     1741 gtgaatatgc aaagcggtac actccacact gggcagagaa ccggaacctg gcagtgcgca
     1801 gtgtggtaga cgctcagcgc tgtggtgctc tgaagacagg cgaggcgagg cagaagccca
     1861 ccacaggccc gctgttagtt cttagaggaa agtcacatct ctcttatcta ccagattagc
     1921 aagggcactg tgatacagtt ttcgagtaca aagacatttt ttaaaaagcc ttccagtttt
     1981 gtgcattaaa acctttttgt aaagatgatt tataatactg ttttcaaaag caaggcaata
     2041 attatgttgc attgtggact tgggcaggtt tgtgtaaatg aagagggaag cctcttaaac
     2101 cagcaataac tgaaagggag agagcaggaa gtctaccttc tgagcagtca gggagcttag
     2161 tcctgtgagc tcgtctgtga cctcatcaca gaggagtcag cggcgagctc accttattcc
     2221 ttaacataat cggttggggg agctgagggg agtcgtctag gaggctttac tgcttgtgta
     2281 ggaactttgt tactgggtgt aagcaaaggg gcccccttat gtccctctct cttcatcttg
     2341 ggtaacgcaa gaggagaatg cttatgacgg gcttttccga ctcgtactga aagcctagag
     2401 gtgccatttc acggtttctc gttcttaagc acgacatgac atacttaatc attctttgag
     2461 actgattatt ttagctaaat ttggggatat ggcatggggc aggaagatgt gcactgagag
     2521 atttctaagc acatctgttt aagcagactt tgaaaatctc tggcccgaag gtaagttgct
     2581 gtgtcctcgg agttgtctgc gtccagggaa tatgtccgag aatacgcctt tgtaatggag
     2641 gtcggctttg ccatttctaa ctgcaaacag aacagaaggg gtgccataaa ttcacagcat
     2701 actgttctca acatactgta atccaaaagg gtttcaatgt gtctgtatga gagtgcgtgt
     2761 gtttctaagg tcagtagagg gtgttcttca acttggtcag tagaaatagg catcgagtgt
     2821 gaccaggcga ggtgtggaaa gccttgcgag gagacgctta tgagttctgt gccaggtcct
     2881 tcaccactgt gtactttatt gctatttaaa actgtatcaa ctctaacgaa agaataaatt
     2941 atttgtgatt ttaa
//
