LOCUS       NM_005636               1209 bp    mRNA    linear   PRI 20-SEP-2024
DEFINITION  Homo sapiens SSX family member 4 (SSX4), transcript variant 1,
            mRNA.
ACCESSION   NM_005636 XM_936387 XM_942793
VERSION     NM_005636.4
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 1209)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   2  (bases 1 to 1209)
  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 1209)
  AUTHORS   Fragoza,R., Das,J., Wierbowski,S.D., Liang,J., Tran,T.N., Liang,S.,
            Beltran,J.F., Rivera-Erick,C.A., Ye,K., Wang,T.Y., Yao,L., Mort,M.,
            Stenson,P.D., Cooper,D.N., Wei,X., Keinan,A., Schimenti,J.C.,
            Clark,A.G. and Yu,H.
  TITLE     Extensive disruption of protein interactions by genetic variants
            across the allele frequency spectrum in human populations
  JOURNAL   Nat Commun 10 (1), 4141 (2019)
   PUBMED   31515488
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 1209)
  AUTHORS   Stark,M.S., Tom,L.N., Boyle,G.M., Bonazzi,V.F., Soyer,H.P.,
            Herington,A.C., Pollock,P.M. and Hayward,N.K.
  TITLE     The 'melanoma-enriched' microRNA miR-4731-5p acts as a tumour
            suppressor
  JOURNAL   Oncotarget 7 (31), 49677-49687 (2016)
   PUBMED   27331623
  REMARK    GeneRIF: loss of miR-4731 expression in stage IV patient tumors
            supports melanoma growth by, in part, reducing its regulatory
            control of SSX expression levels
REFERENCE   5  (bases 1 to 1209)
  AUTHORS   He,L., Ji,J.N., Liu,S.Q., Xue,E., Liang,Q. and Ma,Z.
  TITLE     Expression of cancer-testis antigen in multiple myeloma
  JOURNAL   J Huazhong Univ Sci Technolog Med Sci 34 (2), 181-185 (2014)
   PUBMED   24710929
  REMARK    GeneRIF: The mRNA levels of SSX1 and SSX4 are associated with
            multiple myeloma clinical stage
REFERENCE   6  (bases 1 to 1209)
  AUTHORS   Brodin,B., Haslam,K., Yang,K., Bartolazzi,A., Xie,Y., Starborg,M.,
            Lundeberg,J. and Larsson,O.
  TITLE     Cloning and characterization of spliced fusion transcript variants
            of synovial sarcoma: SYT/SSX4, SYT/SSX4v, and SYT/SSX2v. Possible
            regulatory role of the fusion gene product in wild type SYT
            expression
  JOURNAL   Gene 268 (1-2), 173-182 (2001)
   PUBMED   11368913
REFERENCE   7  (bases 1 to 1209)
  AUTHORS   Chen,C.H., Chen,G.J., Lee,H.S., Huang,G.T., Yang,P.M., Tsai,L.J.,
            Chen,D.S. and Sheu,J.C.
  TITLE     Expressions of cancer-testis antigens in human hepatocellular
            carcinomas
  JOURNAL   Cancer Lett 164 (2), 189-195 (2001)
   PUBMED   11179834
REFERENCE   8  (bases 1 to 1209)
  AUTHORS   dos Santos,N.R., de Bruijn,D.R. and van Kessel,A.G.
  TITLE     Molecular mechanisms underlying human synovial sarcoma development
  JOURNAL   Genes Chromosomes Cancer 30 (1), 1-14 (2001)
   PUBMED   11107170
  REMARK    Review article
REFERENCE   9  (bases 1 to 1209)
  AUTHORS   Skytting,B., Nilsson,G., Brodin,B., Xie,Y., Lundeberg,J., Uhlen,M.
            and Larsson,O.
  TITLE     A novel fusion gene, SYT-SSX4, in synovial sarcoma
  JOURNAL   J Natl Cancer Inst 91 (11), 974-975 (1999)
   PUBMED   10359553
REFERENCE   10 (bases 1 to 1209)
  AUTHORS   Gure,A.O., Tureci,O., Sahin,U., Tsang,S., Scanlan,M.J., Jager,E.,
            Knuth,A., Pfreundschuh,M., Old,L.J. and Chen,Y.T.
  TITLE     SSX: a multigene family with several members transcribed in normal
            testis and human cancer
  JOURNAL   Int J Cancer 72 (6), 965-971 (1997)
   PUBMED   9378559
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AL606490.15.
            
            On May 17, 2019 this sequence version replaced NM_005636.3.
            
            Summary: The product of this gene belongs to the family of highly
            homologous synovial sarcoma X (SSX) breakpoint proteins. These
            proteins may function as transcriptional repressors. They are also
            capable of eliciting spontaneously humoral and cellular immune
            responses in cancer patients, and are potentially useful targets in
            cancer vaccine-based immunotherapy. SSX1, SSX2 and SSX4 genes have
            been involved in the t(X;18) translocation characteristically found
            in all synovial sarcomas. This translocation results in the fusion
            of the synovial sarcoma translocation gene on chromosome 18 to one
            of the SSX genes on chromosome X. Chromosome Xp11 contains a
            segmental duplication resulting in two identical copies of synovial
            sarcoma, X breakpoint 4, SSX4 and SSX4B, in tail-to-tail
            orientation. This gene, SSX4, represents the more telomeric copy.
            Two transcript variants encoding distinct isoforms have been
            identified for this gene. [provided by RefSeq, Jul 2008].
            
            Transcript Variant: This variant (1) represents the longer
            transcript and encodes the longer isoform (a).
            
            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 :: BC005325.1, SRR5189658.35467.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968968, SAMEA2148093
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000595689.3/ ENSP00000469011.1
            RefSeq Select criteria :: based on expression, longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-26                AL606490.15        85604-85629         c
            27-115              AL606490.15        85046-85134         c
            116-230             AL606490.15        84493-84607         c
            231-326             AL606490.15        83721-83816         c
            327-376             AL606490.15        81808-81857         c
            377-512             AL606490.15        79687-79822         c
            513-617             AL606490.15        77195-77299         c
            618-1209            AL606490.15        75821-76412         c
FEATURES             Location/Qualifiers
     source          1..1209
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="X"
                     /map="Xp11.23"
     gene            1..1209
                     /gene="SSX4"
                     /gene_synonym="CT5.4"
                     /note="SSX family member 4"
                     /db_xref="GeneID:6759"
                     /db_xref="HGNC:HGNC:11338"
                     /db_xref="MIM:300326"
     exon            1..26
                     /gene="SSX4"
                     /gene_synonym="CT5.4"
                     /inference="alignment:Splign:2.1.0"
     exon            27..115
                     /gene="SSX4"
                     /gene_synonym="CT5.4"
                     /inference="alignment:Splign:2.1.0"
     CDS             47..613
                     /gene="SSX4"
                     /gene_synonym="CT5.4"
                     /note="isoform a is encoded by transcript variant 1;
                     protein SSX4; cancer/testis antigen 5.4; synovial sarcoma,
                     X breakpoint 4"
                     /codon_start=1
                     /product="protein SSX4 isoform a"
                     /protein_id="NP_005627.1"
                     /db_xref="CCDS:CCDS35240.1"
                     /db_xref="GeneID:6759"
                     /db_xref="HGNC:HGNC:11338"
                     /db_xref="MIM:300326"
                     /translation="MNGDDAFARRPRDDAQISEKLRKAFDDIAKYFSKKEWEKMKSSE
                     KIVYVYMKLNYEVMTKLGFKVTLPPFMRSKRAADFHGNDFGNDRNHRNQVERPQMTFG
                     SLQRIFPKIMPKKPAEEENGLKEVPEASGPQNDGKQLCPPGNPSTLEKINKTSGPKRG
                     KHAWTHRLRERKQLVVYEEISDPEEDDE"
     exon            116..230
                     /gene="SSX4"
                     /gene_synonym="CT5.4"
                     /inference="alignment:Splign:2.1.0"
     exon            231..326
                     /gene="SSX4"
                     /gene_synonym="CT5.4"
                     /inference="alignment:Splign:2.1.0"
     exon            327..376
                     /gene="SSX4"
                     /gene_synonym="CT5.4"
                     /inference="alignment:Splign:2.1.0"
     exon            377..512
                     /gene="SSX4"
                     /gene_synonym="CT5.4"
                     /inference="alignment:Splign:2.1.0"
     exon            513..617
                     /gene="SSX4"
                     /gene_synonym="CT5.4"
                     /inference="alignment:Splign:2.1.0"
     exon            618..1209
                     /gene="SSX4"
                     /gene_synonym="CT5.4"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 gcccttttga ttcttccaca atcagggtga gactgctccc agtgccatga acggagacga
       61 cgcctttgca aggagaccca gggatgatgc tcaaatatca gagaagttac gaaaggcctt
      121 cgatgatatt gccaaatact tctctaagaa agagtgggaa aagatgaaat cctcggagaa
      181 aatcgtctat gtgtatatga agctaaacta tgaggtcatg actaaactag gtttcaaggt
      241 caccctccca cctttcatgc gtagtaaacg ggctgcagac ttccacggga atgattttgg
      301 taacgatcga aaccacagga atcaggttga acgtcctcag atgactttcg gcagcctcca
      361 gagaatcttc ccgaagatca tgcccaagaa gccagcagag gaagaaaatg gtttgaagga
      421 agtgccagag gcatctggcc cacaaaatga tgggaaacag ctgtgccccc cgggaaatcc
      481 aagtaccttg gagaagatta acaagacatc tggacccaaa agggggaaac atgcctggac
      541 ccacagactg cgtgagagaa agcagctggt ggtttatgaa gagatcagcg accctgagga
      601 agatgacgag taactcccct cggggatatg acacatgccc atgatgagaa gcagaacgtg
      661 gtgacctttc acgaacatgg gcatggctgc ggacccctcg tcatcaggtg catagcaagt
      721 gaaagcaagt gttcacaaca gtgaaaagtt gagcgtcatt tttcttagtg tgccaagagt
      781 tcgatgttgg cgtttccgct gtattttctt gcagtgtgcc attctgttag acattagcgt
      841 tttcgttgat gagcaagaca tgcttaatgc atatttcggc ttgtgtatcc atgcacctac
      901 ctcagaaaac aagtattgtc aggtattctc tccatagaac agcactaccc tcctctctcc
      961 ccagatgtga ctactgaggg gaggtctgag tgtttaattt ccgatttttt cctctgcatt
     1021 tacacacaca ccacacacgc acacacacac accaagtacc agtataagca tctcccatct
     1081 gcttttctcc attgccatgc gacctggtca agcccccctc actctgtttc ctgttcagca
     1141 tgtactcccc tcatccgatt ccgttgtatc agtcactgac agttaataaa cctttgcaaa
     1201 cgttcccca
//
