LOCUS       NM_001015887            3523 bp    mRNA    linear   PRI 03-OCT-2024
DEFINITION  Homo sapiens immunoglobulin superfamily member 11 (IGSF11),
            transcript variant 2, mRNA.
ACCESSION   NM_001015887
VERSION     NM_001015887.3
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 3523)
  AUTHORS   Chen,B., Zhu,G., Yan,A., He,J., Liu,Y., Li,L., Yang,X., Dong,C. and
            Kee,K.
  TITLE     IGSF11 is required for pericentric heterochromatin dissociation
            during meiotic diplotene
  JOURNAL   PLoS Genet 17 (9), e1009778 (2021)
   PUBMED   34491997
  REMARK    GeneRIF: IGSF11 is required for pericentric heterochromatin
            dissociation during meiotic diplotene.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3523)
  AUTHORS   Xie,X., Chen,C., Chen,W., Jiang,J., Wang,L., Li,T., Sun,H. and
            Liu,J.
  TITLE     Structural Basis of VSIG3: The Ligand for VISTA
  JOURNAL   Front Immunol 12, 625808 (2021)
   PUBMED   33841409
  REMARK    GeneRIF: Structural Basis of VSIG3: The Ligand for VISTA.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3523)
  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   4  (bases 1 to 3523)
  AUTHORS   Wang,J., Wu,G., Manick,B., Hernandez,V., Renelt,M., Erickson,C.,
            Guan,J., Singh,R., Rollins,S., Solorz,A., Bi,M., Li,J.,
            Grabowski,D., Dirkx,J., Tracy,C., Stuart,T., Ellinghuysen,C.,
            Desmond,D., Foster,C. and Kalabokis,V.
  TITLE     VSIG-3 as a ligand of VISTA inhibits human T-cell function
  JOURNAL   Immunology 156 (1), 74-85 (2019)
   PUBMED   30220083
  REMARK    GeneRIF: this study shows that VSIG-3 as a ligand of VISTA inhibits
            human T-cell function
REFERENCE   5  (bases 1 to 3523)
  AUTHORS   Jang,S., Oh,D., Lee,Y., Hosy,E., Shin,H., van Riesen,C.,
            Whitcomb,D., Warburton,J.M., Jo,J., Kim,D., Kim,S.G., Um,S.M.,
            Kwon,S.K., Kim,M.H., Roh,J.D., Woo,J., Jun,H., Lee,D., Mah,W.,
            Kim,H., Kaang,B.K., Cho,K., Rhee,J.S., Choquet,D. and Kim,E.
  TITLE     Synaptic adhesion molecule IgSF11 regulates synaptic transmission
            and plasticity
  JOURNAL   Nat Neurosci 19 (1), 84-93 (2016)
   PUBMED   26595655
  REMARK    GeneRIF: Concerted role for IgSF11 and PSD-95 in the regulation of
            AMPAR-mediated synaptic transmission and plasticity.
REFERENCE   6  (bases 1 to 3523)
  AUTHORS   Harada,H., Suzu,S., Hayashi,Y. and Okada,S.
  TITLE     BT-IgSF, a novel immunoglobulin superfamily protein, functions as a
            cell adhesion molecule
  JOURNAL   J Cell Physiol 204 (3), 919-926 (2005)
   PUBMED   15795899
  REMARK    GeneRIF: cell adhesion-inducing function of BT-IgSF suggests a role
            of the cell surface molecule in the development/function of the
            central nervous system and spermatogenesis
REFERENCE   7  (bases 1 to 3523)
  AUTHORS   Watanabe,T., Suda,T., Tsunoda,T., Uchida,N., Ura,K., Kato,T.,
            Hasegawa,S., Satoh,S., Ohgi,S., Tahara,H., Furukawa,Y. and
            Nakamura,Y.
  TITLE     Identification of immunoglobulin superfamily 11 (IGSF11) as a novel
            target for cancer immunotherapy of gastrointestinal and
            hepatocellular carcinomas
  JOURNAL   Cancer Sci 96 (8), 498-506 (2005)
   PUBMED   16108831
  REMARK    GeneRIF: IGSF11 is a good candidate of cancer-testis antigen.
            Furthermore, suppression of IGSF11 by siRNA retarded the growth of
            gastric cancer cells.
REFERENCE   8  (bases 1 to 3523)
  AUTHORS   Clark,H.F., Gurney,A.L., Abaya,E., Baker,K., Baldwin,D., Brush,J.,
            Chen,J., Chow,B., Chui,C., Crowley,C., Currell,B., Deuel,B.,
            Dowd,P., Eaton,D., Foster,J., Grimaldi,C., Gu,Q., Hass,P.E.,
            Heldens,S., Huang,A., Kim,H.S., Klimowski,L., Jin,Y., Johnson,S.,
            Lee,J., Lewis,L., Liao,D., Mark,M., Robbie,E., Sanchez,C.,
            Schoenfeld,J., Seshagiri,S., Simmons,L., Singh,J., Smith,V.,
            Stinson,J., Vagts,A., Vandlen,R., Watanabe,C., Wieand,D., Woods,K.,
            Xie,M.H., Yansura,D., Yi,S., Yu,G., Yuan,J., Zhang,M., Zhang,Z.,
            Goddard,A., Wood,W.I., Godowski,P. and Gray,A.
  TITLE     The secreted protein discovery initiative (SPDI), a large-scale
            effort to identify novel human secreted and transmembrane proteins:
            a bioinformatics assessment
  JOURNAL   Genome Res 13 (10), 2265-2270 (2003)
   PUBMED   12975309
  REMARK    Erratum:[Genome Res. 2003 Dec;13(12):2759]
REFERENCE   9  (bases 1 to 3523)
  AUTHORS   Katoh,M. and Katoh,M.
  TITLE     IGSF11 gene, frequently up-regulated in intestinal-type gastric
            cancer, encodes adhesion molecule homologous to CXADR, FLJ22415 and
            ESAM
  JOURNAL   Int J Oncol 23 (2), 525-531 (2003)
   PUBMED   12851705
REFERENCE   10 (bases 1 to 3523)
  AUTHORS   Suzu,S., Hayashi,Y., Harumi,T., Nomaguchi,K., Yamada,M.,
            Hayasawa,H. and Motoyoshi,K.
  TITLE     Molecular cloning of a novel immunoglobulin superfamily gene
            preferentially expressed by brain and testis
  JOURNAL   Biochem Biophys Res Commun 296 (5), 1215-1221 (2002)
   PUBMED   12207903
  REMARK    GeneRIF: Molecular cloning of BT-IgSF which is preferentially
            expressed by brain and testis
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC007023.3, AY358141.1, AB071618.1, AL834256.1 and AC068984.15.
            
            On May 17, 2019 this sequence version replaced NM_001015887.2.
            
            Summary: IGSF11 is an immunoglobulin (Ig) superfamily member that
            is preferentially expressed in brain and testis. It shares
            significant homology with coxsackievirus and adenovirus receptor
            (CXADR; MIM 602621) and endothelial cell-selective adhesion
            molecule (ESAM).[supplied by OMIM, Apr 2005].
            
            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 :: SRR1660805.77704.1,
                                           SRR1660803.211010.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000393775.7/ ENSP00000377370.2
            RefSeq Select criteria :: based on conservation
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-17                AC007023.3         125445-125461       c
            18-378              AY358141.1         42-402
            379-752             AB071618.1         352-725
            753-3450            AL834256.1         167-2864
            3451-3523           AC068984.15        11741-11813
FEATURES             Location/Qualifiers
     source          1..3523
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="3"
                     /map="3q13.32"
     gene            1..3523
                     /gene="IGSF11"
                     /gene_synonym="BT-IgSF; BTIGSF; CT119; CXADRL1; Igsf13;
                     VSIG3"
                     /note="immunoglobulin superfamily member 11"
                     /db_xref="GeneID:152404"
                     /db_xref="HGNC:HGNC:16669"
                     /db_xref="MIM:608351"
     exon            1..316
                     /gene="IGSF11"
                     /gene_synonym="BT-IgSF; BTIGSF; CT119; CXADRL1; Igsf13;
                     VSIG3"
                     /inference="alignment:Splign:2.1.0"
     CDS             265..1560
                     /gene="IGSF11"
                     /gene_synonym="BT-IgSF; BTIGSF; CT119; CXADRL1; Igsf13;
                     VSIG3"
                     /note="isoform b precursor is encoded by transcript
                     variant 2; V-set and immunoglobulin domain containing 3;
                     cancer/testis antigen 119; brain and testis-specific
                     immunoglobin superfamily protein; CXADR like 1; V-set and
                     immunoglobulin domain-containing protein 3; brain and
                     testis-specific immunoglobulin superfamily protein"
                     /codon_start=1
                     /product="immunoglobulin superfamily member 11 isoform b
                     precursor"
                     /protein_id="NP_001015887.1"
                     /db_xref="CCDS:CCDS46891.1"
                     /db_xref="GeneID:152404"
                     /db_xref="HGNC:HGNC:16669"
                     /db_xref="MIM:608351"
                     /translation="MTSQRSPLAPLLLLSLHGVAASLEVSESPGSIQVARGQPAVLPC
                     TFTTSAALINLNVIWMVTPLSNANQPEQVILYQGGQMFDGAPRFHGRVGFTGTMPATN
                     VSIFINNTQLSDTGTYQCLVNNLPDIGGRNIGVTGLTVLVPPSAPHCQIQGSQDIGSD
                     VILLCSSEEGIPRPTYLWEKLDNTLKLPPTATQDQVQGTVTIRNISALSSGLYQCVAS
                     NAIGTSTCLLDLQVISPQPRNIGLIAGAIGTGAVIIIFCIALILGAFFYWRSKNKEEE
                     EEEIPNEIREDDLPPKCSSAKAFHTEISSSDNNTLTSSNAYNSRYWSNNPKVHRNTES
                     VSHFSDLGQSFSFHSGNANIPSIYANGTHLVPGQHKTLVVTANRGSSPQVMSRSNGSV
                     SRKPRPPHTHSYTISHATLERIGAVPVMVPAQSRAGSLV"
     exon            317..480
                     /gene="IGSF11"
                     /gene_synonym="BT-IgSF; BTIGSF; CT119; CXADRL1; Igsf13;
                     VSIG3"
                     /inference="alignment:Splign:2.1.0"
     exon            481..688
                     /gene="IGSF11"
                     /gene_synonym="BT-IgSF; BTIGSF; CT119; CXADRL1; Igsf13;
                     VSIG3"
                     /inference="alignment:Splign:2.1.0"
     exon            689..844
                     /gene="IGSF11"
                     /gene_synonym="BT-IgSF; BTIGSF; CT119; CXADRL1; Igsf13;
                     VSIG3"
                     /inference="alignment:Splign:2.1.0"
     exon            845..967
                     /gene="IGSF11"
                     /gene_synonym="BT-IgSF; BTIGSF; CT119; CXADRL1; Igsf13;
                     VSIG3"
                     /inference="alignment:Splign:2.1.0"
     exon            968..1118
                     /gene="IGSF11"
                     /gene_synonym="BT-IgSF; BTIGSF; CT119; CXADRL1; Igsf13;
                     VSIG3"
                     /inference="alignment:Splign:2.1.0"
     exon            1119..3523
                     /gene="IGSF11"
                     /gene_synonym="BT-IgSF; BTIGSF; CT119; CXADRL1; Igsf13;
                     VSIG3"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1905..1910
                     /regulatory_class="polyA_signal_sequence"
                     /gene="IGSF11"
                     /gene_synonym="BT-IgSF; BTIGSF; CT119; CXADRL1; Igsf13;
                     VSIG3"
                     /note="hexamer: ATTAAA"
     polyA_site      1929
                     /gene="IGSF11"
                     /gene_synonym="BT-IgSF; BTIGSF; CT119; CXADRL1; Igsf13;
                     VSIG3"
                     /note="major polyA site"
     regulatory      3428..3433
                     /regulatory_class="polyA_signal_sequence"
                     /gene="IGSF11"
                     /gene_synonym="BT-IgSF; BTIGSF; CT119; CXADRL1; Igsf13;
                     VSIG3"
                     /note="hexamer: AATAAA"
     polyA_site      3450
                     /gene="IGSF11"
                     /gene_synonym="BT-IgSF; BTIGSF; CT119; CXADRL1; Igsf13;
                     VSIG3"
                     /note="major polyA site"
ORIGIN      
        1 agtcctgggg cagggctggg tggcacggct ggcgagcccg gaacgcctct ggtcacagct
       61 cagcgtccgc ggagccgggc ggcgctgcag ctgcacttgg ctcgtctgtg ggtctgacag
      121 tcccagctct gcgcggggaa cagcggcccg gcgctgggtg tgggaggacc aggctgcccc
      181 aagagcgcgg agactcacgc ccgctcctct cctgttgcga ccgggagccg ggtaggaggc
      241 aggcgcgctc cctgcggccc cgggatgact tctcagcgtt cccctctggc gcctttgctg
      301 ctcctctctc tgcacggtgt tgcagcatcc ctggaagtgt cagagagccc tgggagtatc
      361 caggtggccc ggggtcagcc agcagtcctg ccctgcactt tcactaccag cgctgccctc
      421 attaacctca atgtcatttg gatggtcact cctctctcca atgccaacca acctgaacag
      481 gtcatcctgt atcagggtgg acagatgttt gatggtgccc cccggttcca cggtagggta
      541 ggatttacag gcaccatgcc agctaccaat gtctctatct tcattaataa cactcagtta
      601 tcagacactg gcacctacca gtgcctggtc aacaaccttc cagacatagg gggcaggaac
      661 attggggtca ccggtctcac agtgttagtt cccccttctg ccccacactg ccaaatccaa
      721 ggatcccagg atattggcag cgatgtcatc ctgctctgta gctcagagga aggcattcct
      781 cgaccaactt acctttggga gaagttagac aataccctca aactacctcc aacagctact
      841 caggaccagg tccagggaac agtcaccatc cggaacatca gtgccctgtc ttcaggtttg
      901 taccagtgcg tggcttctaa tgctattgga accagcacct gtcttctgga tctccaggtt
      961 atttcacccc agcccaggaa cattggacta atagctggag ccattggcac tggtgcagtt
     1021 attatcattt tttgcattgc actaatttta ggggcattct tttactggag aagcaaaaat
     1081 aaagaggagg aagaagaaga aattcctaat gaaataagag aggatgatct tccacccaag
     1141 tgttcttctg ccaaagcatt tcacactgag atttcctcct cggacaacaa cacactaacc
     1201 tcttccaatg cctacaacag tcgatactgg agcaacaatc caaaagttca tagaaacaca
     1261 gagtcagtca gccacttcag tgacttgggc caatctttct ctttccactc aggcaatgcc
     1321 aacataccat ccatttatgc taatgggacc catctggtcc cgggtcaaca taagactctg
     1381 gtagtgacag ccaacagagg gtcatcacca caggtgatgt ccaggagcaa tggctcagtc
     1441 agtaggaagc ctcggcctcc acacactcat tcctacacca tcagccacgc aacactggaa
     1501 cgaattggtg cagtacctgt catggtacca gcccagagtc gggccgggtc cttggtatag
     1561 gacatgagga aatgttgtgt tcagaaatga ataaatggaa tgccctcata caagggggag
     1621 ggtggggtgg ggagtgctgg gaaagaaaca cttccttata attatattag taaaatgcac
     1681 aaagaagaag gcagtgctgt tacttggcca ctaagatgtg taaaatggac tgaaatgctc
     1741 catcatgaag acttgcttcc ccaccaaaga tgtcctggga ttctgctgga tctcaaagat
     1801 gtgccaagcc aaggaaaaag atacaagagc agaatagtac ttaaaatcca aactgccgcc
     1861 cagatgggct tgttcttcat gcctaactta ataattttta agagattaaa gtgccagatg
     1921 gagtttaaat attgaaatta ttttaaaagg taggtgtctt taagaaaata acaagcaacc
     1981 ctgtgatatg ttccgtctct cccaattccc tcgttatata gagggcttaa tggtataaat
     2041 ggttaatatt ggtcccaaca gggctgactc ttctatcata taatcaaaac tttttacatg
     2101 agcaaaattc agtaagaaat gggggaagac aaaggaaacg tctttgagaa gccccttcat
     2161 atttatttat ttatctcttc ctgaaccatg aatttcatat gtggaatatt gctatattga
     2221 cagattcttg cctgtctgtg ttattctagg atctgttaca ggtccatggc aattactgtt
     2281 tattttttcc tggaaaaata tttttttata aaaggctttt tttttttttt aaatacatga
     2341 gaggcattgg gctaagaaag aaaagactgt tgtataatac cttgttcaat ggttgtattt
     2401 agtgagctca tagaggtcca tcatatcatg accgagctag gttgtgtggg caggaaggta
     2461 gggctaaggg gttgtagcct tgctgggcag cctctcagag caaggttgtt cagatctccc
     2521 ttgctattac agtaggttac tattaatgag ggcagcacct gatgcctttt gtactgaggt
     2581 atgtaacttt ctccttattt gacaagtaga agttaactta cttgtcaggg agggcagacg
     2641 tttttttgtt ctgtttcgtt tttcaaaata atgctttttg caaaagaggt aagactgaga
     2701 ctaaaggtgt tatcttctgg tgtgctcctg gaagtgtcta ccctacattt gtgtcagctc
     2761 agggttgcag tgttgcccag atgcatttta catcactgta aagagattac ttttgtggtt
     2821 actacctggc ttggctggcc ttgcggttca ccagattaat ttacaaactc ccccacttta
     2881 ttttgtgcta tgtagatctg gccatacttg cattagtgac tgtcttgcct taaccacact
     2941 taagcaaccc acaaatttct tctcagattt gtttcctaga ttacttatga tactcatccc
     3001 atgtctcaat aagagtgtct tttctttctg gatgtgttct cttactccct cttaccacca
     3061 tactttttgc tctcttctcc tgcaagcgta gtcttcacag ggagtggctt cctgacattt
     3121 ttttcagtta tgtgaatgaa tggaaaccaa cagctgctgc aaacactgtt tttccaagaa
     3181 ggctacactc agaacctaac cattgccaac catttcagta ttgataaaaa gctgaattta
     3241 ctttagcatt acttattttt ttttccattt gatggttctt actttgtaaa aatttaaata
     3301 aatgaatgtc tatacttttt ataaagaaaa gtgaaaatac catgacactg aaaagatgat
     3361 gctatcagat gctgtttaga aagcatttat cttgcatttc tttattcttt ctaattatct
     3421 aaaattcaat aaaattttat tcatataaaa taagttgtca ttaattatca atactaacga
     3481 gtatgtcatt ttaaaactta gtattctctt taatgttaca aga
//
