LOCUS       NM_003116               1561 bp    mRNA    linear   PRI 08-JUN-2024
DEFINITION  Homo sapiens sperm associated antigen 4 (SPAG4), transcript variant
            1, mRNA.
ACCESSION   NM_003116
VERSION     NM_003116.3
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 1561)
  AUTHORS   Wang,Y., Tang,Y., Li,J., Wang,D. and Li,W.
  TITLE     Human sperm-associated antigen 4 as a potential prognostic
            biomarker of lung squamous cell carcinoma
  JOURNAL   J Int Med Res 49 (7), 3000605211032807 (2021)
   PUBMED   34311595
  REMARK    GeneRIF: Human sperm-associated antigen 4 as a potential prognostic
            biomarker of lung squamous cell carcinoma.
REFERENCE   2  (bases 1 to 1561)
  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 1561)
  AUTHORS   Li,X., Wu,Y., Huang,L., Yang,L. and Xing,X.
  TITLE     SPAG4L/SPAG4Lbeta interacts with Nesprin2 to participate in the
            meiosis of spermatogenesis
  JOURNAL   Acta Biochim Biophys Sin (Shanghai) 51 (7), 669-676 (2019)
   PUBMED   31144711
  REMARK    GeneRIF: Results indicate that sperm associated antigen 4
            (SPAG4L/SPAG4Lbeta) transcript isoform interacts with spectrin
            repeat containing nuclear envelope protein 2 (Nesprin2) in the
            meiotic process.
REFERENCE   4  (bases 1 to 1561)
  AUTHORS   Zhao,J., Liu,B., Yang,J.A., Tang,D., Wang,X. and Chen,Q.
  TITLE     Human sperm-associated antigen 4 as a potential biomarker of
            glioblastoma progression and prognosis
  JOURNAL   Neuroreport 30 (6), 446-451 (2019)
   PUBMED   30817682
  REMARK    GeneRIF: Our study revealed that SPAG4 was identified as a cancer
            biomarker for glioblastoma and might be a promising target for
            clinical diagnosis and intervention of glioblastoma.
REFERENCE   5  (bases 1 to 1561)
  AUTHORS   Ji,Y., Jiang,J., Huang,L., Feng,W., Zhang,Z., Jin,L. and Xing,X.
  TITLE     Sperm-associated antigen 4 (SPAG4) as a new cancer marker interacts
            with Nesprin3 to regulate cell migration in lung carcinoma
  JOURNAL   Oncol Rep 40 (2), 783-792 (2018)
   PUBMED   29901114
  REMARK    GeneRIF: SPAG4, in cooperation with Nesprin3, has a fundamental
            pathological function in the migration of lung carcinoma cells.
REFERENCE   6  (bases 1 to 1561)
  AUTHORS   Shoji,K., Murayama,T., Mimura,I., Wada,T., Kume,H., Goto,A.,
            Ohse,T., Tanaka,T., Inagi,R., van der Hoorn,F.A., Manabe,I.,
            Homma,Y., Fukayama,M., Sakurai,T., Hasegawa,T., Aburatani,H.,
            Kodama,T. and Nangaku,M.
  TITLE     Sperm-associated antigen 4, a novel hypoxia-inducible factor 1
            target, regulates cytokinesis, and its expression correlates with
            the prognosis of renal cell carcinoma
  JOURNAL   Am J Pathol 182 (6), 2191-2203 (2013)
   PUBMED   23602831
  REMARK    GeneRIF: SPAG4 is an independent prognostic factor in renal cell
            carcinoma and plays a crucial role in cytokinesis to defend against
            hypoxia-induced tetraploid formation.
REFERENCE   7  (bases 1 to 1561)
  AUTHORS   Kennedy,C., Sebire,K., de Kretser,D.M. and O'Bryan,M.K.
  TITLE     Human sperm associated antigen 4 (SPAG4) is a potential cancer
            marker
  JOURNAL   Cell Tissue Res 315 (2), 279-283 (2004)
   PUBMED   14614621
REFERENCE   8  (bases 1 to 1561)
  AUTHORS   Deloukas,P., Matthews,L.H., Ashurst,J., Burton,J., Gilbert,J.G.,
            Jones,M., Stavrides,G., Almeida,J.P., Babbage,A.K., Bagguley,C.L.,
            Bailey,J., Barlow,K.F., Bates,K.N., Beard,L.M., Beare,D.M.,
            Beasley,O.P., Bird,C.P., Blakey,S.E., Bridgeman,A.M., Brown,A.J.,
            Buck,D., Burrill,W., Butler,A.P., Carder,C., Carter,N.P.,
            Chapman,J.C., Clamp,M., Clark,G., Clark,L.N., Clark,S.Y.,
            Clee,C.M., Clegg,S., Cobley,V.E., Collier,R.E., Connor,R.,
            Corby,N.R., Coulson,A., Coville,G.J., Deadman,R., Dhami,P.,
            Dunn,M., Ellington,A.G., Frankland,J.A., Fraser,A., French,L.,
            Garner,P., Grafham,D.V., Griffiths,C., Griffiths,M.N., Gwilliam,R.,
            Hall,R.E., Hammond,S., Harley,J.L., Heath,P.D., Ho,S., Holden,J.L.,
            Howden,P.J., Huckle,E., Hunt,A.R., Hunt,S.E., Jekosch,K.,
            Johnson,C.M., Johnson,D., Kay,M.P., Kimberley,A.M., King,A.,
            Knights,A., Laird,G.K., Lawlor,S., Lehvaslaiho,M.H., Leversha,M.,
            Lloyd,C., Lloyd,D.M., Lovell,J.D., Marsh,V.L., Martin,S.L.,
            McConnachie,L.J., McLay,K., McMurray,A.A., Milne,S., Mistry,D.,
            Moore,M.J., Mullikin,J.C., Nickerson,T., Oliver,K., Parker,A.,
            Patel,R., Pearce,T.A., Peck,A.I., Phillimore,B.J.,
            Prathalingam,S.R., Plumb,R.W., Ramsay,H., Rice,C.M., Ross,M.T.,
            Scott,C.E., Sehra,H.K., Shownkeen,R., Sims,S., Skuce,C.D.,
            Smith,M.L., Soderlund,C., Steward,C.A., Sulston,J.E., Swann,M.,
            Sycamore,N., Taylor,R., Tee,L., Thomas,D.W., Thorpe,A., Tracey,A.,
            Tromans,A.C., Vaudin,M., Wall,M., Wallis,J.M., Whitehead,S.L.,
            Whittaker,P., Willey,D.L., Williams,L., Williams,S.A., Wilming,L.,
            Wray,P.W., Hubbard,T., Durbin,R.M., Bentley,D.R., Beck,S. and
            Rogers,J.
  TITLE     The DNA sequence and comparative analysis of human chromosome 20
  JOURNAL   Nature 414 (6866), 865-871 (2001)
   PUBMED   11780052
REFERENCE   9  (bases 1 to 1561)
  AUTHORS   Shao,X., Tarnasky,H.A., Lee,J.P., Oko,R. and van der Hoorn,F.A.
  TITLE     Spag4, a novel sperm protein, binds outer dense-fiber protein Odf1
            and localizes to microtubules of manchette and axoneme
  JOURNAL   Dev Biol 211 (1), 109-123 (1999)
   PUBMED   10373309
REFERENCE   10 (bases 1 to 1561)
  AUTHORS   Tarnasky,H., Gill,D., Murthy,S., Shao,X., Demetrick,D.J. and van
            der Hoorn,F.A.
  TITLE     A novel testis-specific gene, SPAG4, whose product interacts
            specifically with outer dense fiber protein ODF27, maps to human
            chromosome 20q11.2
  JOURNAL   Cytogenet Cell Genet 81 (1), 65-67 (1998)
   PUBMED   9691178
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AL109827.8, HY021678.1,
            AF262992.1 and AI168233.1.
            
            On May 17, 2019 this sequence version replaced NM_003116.2.
            
            Summary: The mammalian sperm flagellum contains two cytoskeletal
            structures associated with the axoneme: the outer dense fibers
            surrounding the axoneme in the midpiece and principal piece and the
            fibrous sheath surrounding the outer dense fibers in the principal
            piece of the tail. Defects in these structures are associated with
            abnormal tail morphology, reduced sperm motility, and infertility.
            In the rat, the protein encoded by this gene associates with an
            outer dense fiber protein via a leucine zipper motif and localizes
            to the microtubules of the manchette and axoneme during sperm tail
            development. Alternative splicing results in multiple transcript
            variants encoding different isoforms. [provided by RefSeq, Dec
            2015].
            
            Transcript Variant: This variant (1) encodes the longer 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 :: AF262992.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968968, SAMEA2145544
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000374273.8/ ENSP00000363391.3
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-55                AL109827.8         21380-21434
            56-58               HY021678.1         1-3
            59-1510             AF262992.1         1-1452
            1511-1516           AI168233.1         19-24               c
            1517-1561           AL109827.8         26601-26645
FEATURES             Location/Qualifiers
     source          1..1561
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="20"
                     /map="20q11.22"
     gene            1..1561
                     /gene="SPAG4"
                     /gene_synonym="CT127; SUN4"
                     /note="sperm associated antigen 4"
                     /db_xref="GeneID:6676"
                     /db_xref="HGNC:HGNC:11214"
                     /db_xref="MIM:603038"
     exon            1..479
                     /gene="SPAG4"
                     /gene_synonym="CT127; SUN4"
                     /inference="alignment:Splign:2.1.0"
     CDS             176..1489
                     /gene="SPAG4"
                     /gene_synonym="CT127; SUN4"
                     /note="isoform 1 is encoded by transcript variant 1; Sad1
                     and UNC84 domain containing 4; cancer/testis antigen 127;
                     outer dense fiber-associated protein SPAG4; sperm tail
                     protein; acrosomal protein ACR55; sperm-associated antigen
                     4 protein; SUN domain-containing protein 4"
                     /codon_start=1
                     /product="sperm-associated antigen 4 protein isoform 1"
                     /protein_id="NP_003107.1"
                     /db_xref="CCDS:CCDS13259.1"
                     /db_xref="GeneID:6676"
                     /db_xref="HGNC:HGNC:11214"
                     /db_xref="MIM:603038"
                     /translation="MRRSSRPGSASSSRKHTPNFFSENSSMSITSEDSKGLRSAEPGP
                     GEPEGRRARGPSCGEPALSAGVPGGTTWAGSSQQKPAPRSHNWQTACGAATVRGGASE
                     PTGSPVVSEEPLDLLPTLDLRQEMPPPRVFKSFLSLLFQGLSVLLSLAGDVLVSMYRE
                     VCSIRFLFTAVSLLSLFLSAFWLGLLYLVSPLENEPKEMLTLSEYHERVRSQGQQLQQ
                     LQAELDKLHKEVSTVRAANSERVAKLVFQRLNEDFVRKPDYALSSVGASIDLQKTSHD
                     YADRNTAYFWNRFSFWNYARPPTVILEPHVFPGNCWAFEGDQGQVVIQLPGRVQLSDI
                     TLQHPPPSVEHTGGANSAPRDFAVFGLQVYDETEVSLGKFTFDVEKSEIQTFHLQNDP
                     PAAFPKVKIQILSNWGHPRFTCLYRVRAHGVRTSEGAEGSAQGPH"
     exon            480..584
                     /gene="SPAG4"
                     /gene_synonym="CT127; SUN4"
                     /inference="alignment:Splign:2.1.0"
     exon            585..651
                     /gene="SPAG4"
                     /gene_synonym="CT127; SUN4"
                     /inference="alignment:Splign:2.1.0"
     exon            652..713
                     /gene="SPAG4"
                     /gene_synonym="CT127; SUN4"
                     /inference="alignment:Splign:2.1.0"
     exon            714..757
                     /gene="SPAG4"
                     /gene_synonym="CT127; SUN4"
                     /inference="alignment:Splign:2.1.0"
     exon            758..783
                     /gene="SPAG4"
                     /gene_synonym="CT127; SUN4"
                     /inference="alignment:Splign:2.1.0"
     exon            784..892
                     /gene="SPAG4"
                     /gene_synonym="CT127; SUN4"
                     /inference="alignment:Splign:2.1.0"
     exon            893..968
                     /gene="SPAG4"
                     /gene_synonym="CT127; SUN4"
                     /inference="alignment:Splign:2.1.0"
     exon            969..1084
                     /gene="SPAG4"
                     /gene_synonym="CT127; SUN4"
                     /inference="alignment:Splign:2.1.0"
     exon            1085..1252
                     /gene="SPAG4"
                     /gene_synonym="CT127; SUN4"
                     /inference="alignment:Splign:2.1.0"
     exon            1253..1342
                     /gene="SPAG4"
                     /gene_synonym="CT127; SUN4"
                     /inference="alignment:Splign:2.1.0"
     exon            1343..1561
                     /gene="SPAG4"
                     /gene_synonym="CT127; SUN4"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1485..1490
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SPAG4"
                     /gene_synonym="CT127; SUN4"
                     /note="hexamer: ATTAAA"
     polyA_site      1512
                     /gene="SPAG4"
                     /gene_synonym="CT127; SUN4"
                     /note="major polyA site"
ORIGIN      
        1 gtgacgtcag cagccggccg ggacacagcg ggagggcagg tgcggccgcg gggcctgccg
       61 acttcacgca gggtccgtgg ggtccccgcg gcgcgcagcg gctgaaggag gccccagggc
      121 cttggcgacc gcagcggcgg ctttagcgtc agtgactagg cagcaggggg tcaggatgcg
      181 gcgaagctcc cgcccgggct cggcctcgtc ctcgcgcaag cacacgccca actttttcag
      241 cgagaacagc tcaatgagca tcacctcgga ggacagcaaa gggctccggt cagcggagcc
      301 cgggcctggg gagcccgagg gcagaagagc ccggggcccg agctgcggtg agcccgcctt
      361 gagcgcggga gtgcccggag gaaccacatg ggcaggaagc tctcagcaga agccagcgcc
      421 tcggagccac aactggcaga cagcctgtgg cgcggcaacc gtgaggggcg gggcctcgga
      481 accgactggg tctccagtag tctctgagga gccgctcgac cttctcccga ccctggatct
      541 gaggcaggag atgcctcccc cgcgggtgtt caagagcttt ctgagcctgc tcttccaggg
      601 gctgagcgtg ttgttatccc tggcaggaga cgtgctggtc agcatgtaca gggaggtctg
      661 ttccatccgc ttcctgttca cggctgtgtc gctgctgagc ctctttctgt cagcattctg
      721 gctggggctt ctgtacctgg tctctccttt ggagaatgaa cctaaggaga tgctgactct
      781 aagtgagtac cacgagcgcg tgcgctccca ggggcagcag ctgcagcagc tccaggccga
      841 gctggataaa ctccacaagg aggtgtccac tgttcgggca gccaacagcg agagagtggc
      901 caagctcgtg ttccagaggc tgaatgagga ttttgtgcgg aagcccgact atgctttgag
      961 ctctgtggga gcctccatcg acctgcagaa gacatcccac gattacgcag acaggaacac
     1021 tgcctacttc tggaatcgct tcagcttctg gaactacgca cggccgccca cggttatcct
     1081 ggagccccac gtgttccctg ggaattgctg ggcttttgaa ggcgaccaag gccaggtggt
     1141 gatccaactg ccgggccgag tgcagctgag cgacatcact ctgcagcatc caccgcccag
     1201 cgtggagcac accggaggag ccaacagcgc cccccgcgat ttcgcggtct ttggcctcca
     1261 ggtttatgat gaaactgaag tttccttggg gaaattcacc ttcgatgttg agaaatcgga
     1321 gattcagact ttccacctgc agaatgaccc cccagctgcc tttcccaagg tgaagatcca
     1381 gattctaagc aactggggcc acccccgttt cacgtgcttg tatcgagtcc gtgcccacgg
     1441 tgtgcgaacc tcagaggggg cagagggcag tgcacagggg ccccattaaa catgctgatt
     1501 tttggagtag aattgagttc tgctgaagga tactggatca gtgctttcgg gggctctgtt
     1561 g
//
