LOCUS       NM_001034832            1278 bp    mRNA    linear   PRI 22-SEP-2024
DEFINITION  Homo sapiens SSX family member 4B (SSX4B), transcript variant 1,
            mRNA.
ACCESSION   NM_001034832
VERSION     NM_001034832.5
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 1278)
  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 1278)
  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 1278)
  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 1278)
  AUTHORS   Ayyoub,M., Merlo,A., Hesdorffer,C.S., Rimoldi,D., Speiser,D.,
            Cerottini,J.C., Chen,Y.T., Old,L.J., Stevanovic,S. and Valmori,D.
  TITLE     CD4+ T cell responses to SSX-4 in melanoma patients
  JOURNAL   J Immunol 174 (8), 5092-5099 (2005)
   PUBMED   15814740
REFERENCE   5  (bases 1 to 1278)
  AUTHORS   Ross,M.T., Grafham,D.V., Coffey,A.J., Scherer,S., McLay,K.,
            Muzny,D., Platzer,M., Howell,G.R., Burrows,C., Bird,C.P.,
            Frankish,A., Lovell,F.L., Howe,K.L., Ashurst,J.L., Fulton,R.S.,
            Sudbrak,R., Wen,G., Jones,M.C., Hurles,M.E., Andrews,T.D.,
            Scott,C.E., Searle,S., Ramser,J., Whittaker,A., Deadman,R.,
            Carter,N.P., Hunt,S.E., Chen,R., Cree,A., Gunaratne,P., Havlak,P.,
            Hodgson,A., Metzker,M.L., Richards,S., Scott,G., Steffen,D.,
            Sodergren,E., Wheeler,D.A., Worley,K.C., Ainscough,R.,
            Ambrose,K.D., Ansari-Lari,M.A., Aradhya,S., Ashwell,R.I.,
            Babbage,A.K., Bagguley,C.L., Ballabio,A., Banerjee,R., Barker,G.E.,
            Barlow,K.F., Barrett,I.P., Bates,K.N., Beare,D.M., Beasley,H.,
            Beasley,O., Beck,A., Bethel,G., Blechschmidt,K., Brady,N.,
            Bray-Allen,S., Bridgeman,A.M., Brown,A.J., Brown,M.J., Bonnin,D.,
            Bruford,E.A., Buhay,C., Burch,P., Burford,D., Burgess,J.,
            Burrill,W., Burton,J., Bye,J.M., Carder,C., Carrel,L., Chako,J.,
            Chapman,J.C., Chavez,D., Chen,E., Chen,G., Chen,Y., Chen,Z.,
            Chinault,C., Ciccodicola,A., Clark,S.Y., Clarke,G., Clee,C.M.,
            Clegg,S., Clerc-Blankenburg,K., Clifford,K., Cobley,V., Cole,C.G.,
            Conquer,J.S., Corby,N., Connor,R.E., David,R., Davies,J., Davis,C.,
            Davis,J., Delgado,O., Deshazo,D., Dhami,P., Ding,Y., Dinh,H.,
            Dodsworth,S., Draper,H., Dugan-Rocha,S., Dunham,A., Dunn,M.,
            Durbin,K.J., Dutta,I., Eades,T., Ellwood,M., Emery-Cohen,A.,
            Errington,H., Evans,K.L., Faulkner,L., Francis,F., Frankland,J.,
            Fraser,A.E., Galgoczy,P., Gilbert,J., Gill,R., Glockner,G.,
            Gregory,S.G., Gribble,S., Griffiths,C., Grocock,R., Gu,Y.,
            Gwilliam,R., Hamilton,C., Hart,E.A., Hawes,A., Heath,P.D.,
            Heitmann,K., Hennig,S., Hernandez,J., Hinzmann,B., Ho,S., Hoffs,M.,
            Howden,P.J., Huckle,E.J., Hume,J., Hunt,P.J., Hunt,A.R.,
            Isherwood,J., Jacob,L., Johnson,D., Jones,S., de Jong,P.J.,
            Joseph,S.S., Keenan,S., Kelly,S., Kershaw,J.K., Khan,Z.,
            Kioschis,P., Klages,S., Knights,A.J., Kosiura,A., Kovar-Smith,C.,
            Laird,G.K., Langford,C., Lawlor,S., Leversha,M., Lewis,L., Liu,W.,
            Lloyd,C., Lloyd,D.M., Loulseged,H., Loveland,J.E., Lovell,J.D.,
            Lozado,R., Lu,J., Lyne,R., Ma,J., Maheshwari,M., Matthews,L.H.,
            McDowall,J., McLaren,S., McMurray,A., Meidl,P., Meitinger,T.,
            Milne,S., Miner,G., Mistry,S.L., Morgan,M., Morris,S., Muller,I.,
            Mullikin,J.C., Nguyen,N., Nordsiek,G., Nyakatura,G., O'Dell,C.N.,
            Okwuonu,G., Palmer,S., Pandian,R., Parker,D., Parrish,J.,
            Pasternak,S., Patel,D., Pearce,A.V., Pearson,D.M., Pelan,S.E.,
            Perez,L., Porter,K.M., Ramsey,Y., Reichwald,K., Rhodes,S.,
            Ridler,K.A., Schlessinger,D., Schueler,M.G., Sehra,H.K.,
            Shaw-Smith,C., Shen,H., Sheridan,E.M., Shownkeen,R., Skuce,C.D.,
            Smith,M.L., Sotheran,E.C., Steingruber,H.E., Steward,C.A.,
            Storey,R., Swann,R.M., Swarbreck,D., Tabor,P.E., Taudien,S.,
            Taylor,T., Teague,B., Thomas,K., Thorpe,A., Timms,K., Tracey,A.,
            Trevanion,S., Tromans,A.C., d'Urso,M., Verduzco,D., Villasana,D.,
            Waldron,L., Wall,M., Wang,Q., Warren,J., Warry,G.L., Wei,X.,
            West,A., Whitehead,S.L., Whiteley,M.N., Wilkinson,J.E.,
            Willey,D.L., Williams,G., Williams,L., Williamson,A.,
            Williamson,H., Wilming,L., Woodmansey,R.L., Wray,P.W., Yen,J.,
            Zhang,J., Zhou,J., Zoghbi,H., Zorilla,S., Buck,D., Reinhardt,R.,
            Poustka,A., Rosenthal,A., Lehrach,H., Meindl,A., Minx,P.J.,
            Hillier,L.W., Willard,H.F., Wilson,R.K., Waterston,R.H., Rice,C.M.,
            Vaudin,M., Coulson,A., Nelson,D.L., Weinstock,G., Sulston,J.E.,
            Durbin,R., Hubbard,T., Gibbs,R.A., Beck,S., Rogers,J. and
            Bentley,D.R.
  TITLE     The DNA sequence of the human X chromosome
  JOURNAL   Nature 434 (7031), 325-337 (2005)
   PUBMED   15772651
REFERENCE   6  (bases 1 to 1278)
  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   7  (bases 1 to 1278)
  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   8  (bases 1 to 1278)
  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   9  (bases 1 to 1278)
  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
REFERENCE   10 (bases 1 to 1278)
  AUTHORS   Adams,M.D., Kerlavage,A.R., Fleischmann,R.D., Fuldner,R.A.,
            Bult,C.J., Lee,N.H., Kirkness,E.F., Weinstock,K.G., Gocayne,J.D.,
            White,O. et al.
  TITLE     Initial assessment of human gene diversity and expression patterns
            based upon 83 million nucleotides of cDNA sequence
  JOURNAL   Nature 377 (6547 Suppl), 3-174 (1995)
   PUBMED   7566098
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AL606490.15, AA312651.1,
            BE866727.1, BC137395.1 and CD671168.1.
            
            On Nov 20, 2020 this sequence version replaced NM_001034832.4.
            
            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, SSX4B, represents the more centromeric
            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 :: SRR5189658.35467.1,
                                           SRR9304719.396709.1 [ECO:0000332]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000595235.6/ ENSP00000469394.1
            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
            1-50                AL606490.15        57208-57257
            51-80               AA312651.1         95-124
            81-445              BE866727.1         1-365
            446-712             BC137395.1         352-618
            713-1278            CD671168.1         18-583              c
FEATURES             Location/Qualifiers
     source          1..1278
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="X"
                     /map="Xp11.23"
     gene            1..1278
                     /gene="SSX4B"
                     /gene_synonym="CT5.4"
                     /note="SSX family member 4B"
                     /db_xref="GeneID:548313"
                     /db_xref="HGNC:HGNC:16880"
     exon            1..99
                     /gene="SSX4B"
                     /gene_synonym="CT5.4"
                     /inference="alignment:Splign:2.1.0"
     exon            100..188
                     /gene="SSX4B"
                     /gene_synonym="CT5.4"
                     /inference="alignment:Splign:2.1.0"
     CDS             120..686
                     /gene="SSX4B"
                     /gene_synonym="CT5.4"
                     /note="isoform a is encoded by transcript variant 1;
                     protein SSX4; cancer/testis antigen 5.4; synovial sarcoma,
                     X breakpoint 4B"
                     /codon_start=1
                     /product="protein SSX4 isoform a"
                     /protein_id="NP_001030004.1"
                     /db_xref="CCDS:CCDS35241.1"
                     /db_xref="GeneID:548313"
                     /db_xref="HGNC:HGNC:16880"
                     /translation="MNGDDAFARRPRDDAQISEKLRKAFDDIAKYFSKKEWEKMKSSE
                     KIVYVYMKLNYEVMTKLGFKVTLPPFMRSKRAADFHGNDFGNDRNHRNQVERPQMTFG
                     SLQRIFPKIMPKKPAEEENGLKEVPEASGPQNDGKQLCPPGNPSTLEKINKTSGPKRG
                     KHAWTHRLRERKQLVVYEEISDPEEDDE"
     exon            189..303
                     /gene="SSX4B"
                     /gene_synonym="CT5.4"
                     /inference="alignment:Splign:2.1.0"
     exon            304..399
                     /gene="SSX4B"
                     /gene_synonym="CT5.4"
                     /inference="alignment:Splign:2.1.0"
     exon            400..449
                     /gene="SSX4B"
                     /gene_synonym="CT5.4"
                     /inference="alignment:Splign:2.1.0"
     exon            450..585
                     /gene="SSX4B"
                     /gene_synonym="CT5.4"
                     /inference="alignment:Splign:2.1.0"
     exon            586..690
                     /gene="SSX4B"
                     /gene_synonym="CT5.4"
                     /inference="alignment:Splign:2.1.0"
     exon            691..1278
                     /gene="SSX4B"
                     /gene_synonym="CT5.4"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1258..1263
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SSX4B"
                     /gene_synonym="CT5.4"
                     /note="hexamer: AATAAA"
     polyA_site      1278
                     /gene="SSX4B"
                     /gene_synonym="CT5.4"
                     /note="major polyA site"
ORIGIN      
        1 gactctgatt ttcccgccga aagcgtcccc ttggattggc tactttaaat tcagagtacg
       61 cacacgccga tttgcccttt tgattcttcc acaatcaggg tgagactgct cccagtgcca
      121 tgaacggaga cgacgccttt gcaaggagac ccagggatga tgctcaaata tcagagaagt
      181 tacgaaaggc cttcgatgat attgccaaat acttctctaa gaaagagtgg gaaaagatga
      241 aatcctcgga gaaaatcgtc tatgtgtata tgaagctaaa ctatgaggtc atgactaaac
      301 taggtttcaa ggtcaccctc ccacctttca tgcgtagtaa acgggctgca gacttccacg
      361 ggaatgattt tggtaacgat cgaaaccaca ggaatcaggt tgaacgtcct cagatgactt
      421 tcggcagcct ccagagaatc ttcccgaaga tcatgcccaa gaagccagca gaggaagaaa
      481 atggtttgaa ggaagtgcca gaggcatctg gcccacaaaa tgatgggaaa cagctgtgcc
      541 ccccgggaaa tccaagtacc ttggagaaga ttaacaagac atctggaccc aaaaggggga
      601 aacatgcctg gacccacaga ctgcgtgaga gaaagcagct ggtggtttat gaagagatca
      661 gcgaccctga ggaagatgac gagtaactcc cctcggggat atgacacatg cccatgatga
      721 gaagcagaac gtggtgacct ttcacgaaca tgggcatggc tgcggacccc tcgtcatcag
      781 gtgcatagca agtgaaagca agtgttcaca acagtgaaaa gttgagcgtc atttttctta
      841 gtgtgccaag agttcgatgt tggcgtttcc gctgtatttt cttgcagtgt gccattctgt
      901 tagacattag cgttttcgtt gatgagcaag acatgcttaa tgcatatttc ggcttgtgta
      961 tccatgcacc tacctcagaa aacaagtatt gtcaggtatt ctctccatag aacagcacta
     1021 ccctcctctc tccccagatg tgactactga ggggaggtct gagtgtttaa tttccgattt
     1081 tttcctctgc atttacacac acaccacaca cgcacacaca cacaccaagt accagtataa
     1141 gcatctccca tctgcttttc tccattgcca tgcgacctgg tcaagccccc ctcactctgt
     1201 ttcctgttca gcatgtactc ccctcatccg attccgttgt atcagtcact gacagttaat
     1261 aaacctttgc aaacgttc
//
