LOCUS       NM_004800               3417 bp    mRNA    linear   PRI 04-APR-2024
DEFINITION  Homo sapiens transmembrane 9 superfamily member 2 (TM9SF2), mRNA.
ACCESSION   NM_004800
VERSION     NM_004800.3
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 3417)
  AUTHORS   Zheng,S., Li,Y., Yin,L. and Lu,M.
  TITLE     Identification of sulfur metabolism-related gene signature in
            osteoarthritis and TM9SF2's sustenance effect on M2 macrophages'
            phagocytic activity
  JOURNAL   J Orthop Surg Res 19 (1), 62 (2024)
   PUBMED   38218914
  REMARK    GeneRIF: Identification of sulfur metabolism-related gene signature
            in osteoarthritis and TM9SF2's sustenance effect on M2 macrophages'
            phagocytic activity.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3417)
  AUTHORS   Li,Q., Lei,C., Lu,C., Wang,J., Gao,M. and Gao,W.
  TITLE     LINC01232 exerts oncogenic activities in pancreatic adenocarcinoma
            via regulation of TM9SF2
  JOURNAL   Cell Death Dis 10 (10), 698 (2019)
   PUBMED   31541081
  REMARK    GeneRIF: LINC01232 exerts oncogenic activities in pancreatic
            adenocarcinoma via regulation of TM9SF2.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3417)
  AUTHORS   Luteijn,R.D., van Diemen,F., Blomen,V.A., Boer,I.G.J., Manikam
            Sadasivam,S., van Kuppevelt,T.H., Drexler,I., Brummelkamp,T.R.,
            Lebbink,R.J. and Wiertz,E.J.
  TITLE     A Genome-Wide Haploid Genetic Screen Identifies Heparan
            Sulfate-Associated Genes and the Macropinocytosis Modulator TMED10
            as Factors Supporting Vaccinia Virus Infection
  JOURNAL   J Virol 93 (13), e02160-18 (2019)
   PUBMED   30996093
  REMARK    GeneRIF: Study validated EXT1, TM9SF2, and TMED10 as important host
            factors for vaccinia virus infection.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 3417)
  AUTHORS   Yamaji,T., Sekizuka,T., Tachida,Y., Sakuma,C., Morimoto,K.,
            Kuroda,M. and Hanada,K.
  TITLE     A CRISPR Screen Identifies LAPTM4A and TM9SF Proteins as
            Glycolipid-Regulating Factors
  JOURNAL   iScience 11, 409-424 (2019)
   PUBMED   30660999
REFERENCE   5  (bases 1 to 3417)
  AUTHORS   Tian,S., Muneeruddin,K., Choi,M.Y., Tao,L., Bhuiyan,R.H., Ohmi,Y.,
            Furukawa,K., Furukawa,K., Boland,S., Shaffer,S.A., Adam,R.M. and
            Dong,M.
  TITLE     Genome-wide CRISPR screens for Shiga toxins and ricin reveal Golgi
            proteins critical for glycosylation
  JOURNAL   PLoS Biol 16 (11), e2006951 (2018)
   PUBMED   30481169
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 3417)
  AUTHORS   Tanaka,A., Tumkosit,U., Nakamura,S., Motooka,D., Kishishita,N.,
            Priengprom,T., Sa-Ngasang,A., Kinoshita,T., Takeda,N. and Maeda,Y.
  TITLE     Genome-Wide Screening Uncovers the Significance of N-Sulfation of
            Heparan Sulfate as a Host Cell Factor for Chikungunya Virus
            Infection
  JOURNAL   J Virol 91 (13), e00432-17 (2017)
   PUBMED   28404855
  REMARK    GeneRIF: Among the genes enriched in this screening, the authors
            found that TM9SF2 is critical for N-sulfation of heparan sulfate
            and therefore for chikungunya virus infection because it is
            involved in the proper localization and stability of NDST1.
            Publication Status: Online-Only
REFERENCE   7  (bases 1 to 3417)
  AUTHORS   Comuzzie,A.G., Cole,S.A., Laston,S.L., Voruganti,V.S., Haack,K.,
            Gibbs,R.A. and Butte,N.F.
  TITLE     Novel genetic loci identified for the pathophysiology of childhood
            obesity in the Hispanic population
  JOURNAL   PLoS One 7 (12), e51954 (2012)
   PUBMED   23251661
REFERENCE   8  (bases 1 to 3417)
  AUTHORS   Gonzalez-Begne,M., Lu,B., Han,X., Hagen,F.K., Hand,A.R.,
            Melvin,J.E. and Yates,J.R.
  TITLE     Proteomic analysis of human parotid gland exosomes by
            multidimensional protein identification technology (MudPIT)
  JOURNAL   J Proteome Res 8 (3), 1304-1314 (2009)
   PUBMED   19199708
REFERENCE   9  (bases 1 to 3417)
  AUTHORS   Dunham,A., Matthews,L.H., Burton,J., Ashurst,J.L., Howe,K.L.,
            Ashcroft,K.J., Beare,D.M., Burford,D.C., Hunt,S.E.,
            Griffiths-Jones,S., Jones,M.C., Keenan,S.J., Oliver,K., Scott,C.E.,
            Ainscough,R., Almeida,J.P., Ambrose,K.D., Andrews,D.T.,
            Ashwell,R.I., Babbage,A.K., Bagguley,C.L., Bailey,J., Bannerjee,R.,
            Barlow,K.F., Bates,K., Beasley,H., Bird,C.P., Bray-Allen,S.,
            Brown,A.J., Brown,J.Y., Burrill,W., Carder,C., Carter,N.P.,
            Chapman,J.C., Clamp,M.E., Clark,S.Y., Clarke,G., Clee,C.M.,
            Clegg,S.C., Cobley,V., Collins,J.E., Corby,N., Coville,G.J.,
            Deloukas,P., Dhami,P., Dunham,I., Dunn,M., Earthrowl,M.E.,
            Ellington,A.G., Faulkner,L., Frankish,A.G., Frankland,J.,
            French,L., Garner,P., Garnett,J., Gilbert,J.G., Gilson,C.J.,
            Ghori,J., Grafham,D.V., Gribble,S.M., Griffiths,C., Hall,R.E.,
            Hammond,S., Harley,J.L., Hart,E.A., Heath,P.D., Howden,P.J.,
            Huckle,E.J., Hunt,P.J., Hunt,A.R., Johnson,C., Johnson,D., Kay,M.,
            Kimberley,A.M., King,A., Laird,G.K., Langford,C.J., Lawlor,S.,
            Leongamornlert,D.A., Lloyd,D.M., Lloyd,C., Loveland,J.E.,
            Lovell,J., Martin,S., Mashreghi-Mohammadi,M., McLaren,S.J.,
            McMurray,A., Milne,S., Moore,M.J., Nickerson,T., Palmer,S.A.,
            Pearce,A.V., Peck,A.I., Pelan,S., Phillimore,B., Porter,K.M.,
            Rice,C.M., Searle,S., Sehra,H.K., Shownkeen,R., Skuce,C.D.,
            Smith,M., Steward,C.A., Sycamore,N., Tester,J., Thomas,D.W.,
            Tracey,A., Tromans,A., Tubby,B., Wall,M., Wallis,J.M., West,A.P.,
            Whitehead,S.L., Willey,D.L., Wilming,L., Wray,P.W., Wright,M.W.,
            Young,L., Coulson,A., Durbin,R., Hubbard,T., Sulston,J.E., Beck,S.,
            Bentley,D.R., Rogers,J. and Ross,M.T.
  TITLE     The DNA sequence and analysis of human chromosome 13
  JOURNAL   Nature 428 (6982), 522-528 (2004)
   PUBMED   15057823
REFERENCE   10 (bases 1 to 3417)
  AUTHORS   Schimmoller,F., Diaz,E., Muhlbauer,B. and Pfeffer,S.R.
  TITLE     Characterization of a 76 kDa endosomal, multispanning membrane
            protein that is highly conserved throughout evolution
  JOURNAL   Gene 216 (2), 311-318 (1998)
   PUBMED   9729438
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from BC110656.1 and AL139035.27.
            
            On May 17, 2019 this sequence version replaced NM_004800.2.
            
            Summary: This gene encodes a member of the transmembrane 9
            superfamily. The encoded 76 kDa protein localizes to early
            endosomes in human cells. The encoded protein possesses a conserved
            and highly hydrophobic C-terminal domain which contains nine
            transmembrane domains. The protein may play a role in small
            molecule transport or act as an ion channel. A pseudogene
            associated with this gene is located on the X chromosome. [provided
            by RefSeq, Oct 2012].
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            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 :: BK008790.1, SRR1660807.35196.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000376387.5/ ENSP00000365567.3
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-2760              BC110656.1         56-2815
            2761-3417           AL139035.27        92749-93405
FEATURES             Location/Qualifiers
     source          1..3417
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="13"
                     /map="13q32.3"
     gene            1..3417
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /note="transmembrane 9 superfamily member 2"
                     /db_xref="GeneID:9375"
                     /db_xref="HGNC:HGNC:11865"
                     /db_xref="MIM:604678"
     exon            1..306
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /inference="alignment:Splign:2.1.0"
     CDS             136..2127
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /note="76 kDa membrane protein; transmembrane protein 9
                     superfamily member 2; dinucleotide oxidase disulfide thiol
                     exchanger 3 superfamily member 2; epididymis secretory
                     sperm binding protein; LncRNA Positively Correlated with
                     Inflammatory Responses"
                     /codon_start=1
                     /product="transmembrane 9 superfamily member 2 precursor"
                     /protein_id="NP_004791.1"
                     /db_xref="CCDS:CCDS9493.1"
                     /db_xref="GeneID:9375"
                     /db_xref="HGNC:HGNC:11865"
                     /db_xref="MIM:604678"
                     /translation="MSARLPVLSPPRWPRLLLLSLLLLGAVPGPRRSGAFYLPGLAPV
                     NFCDEEKKSDECKAEIELFVNRLDSVESVLPYEYTAFDFCQASEGKRPSENLGQVLFG
                     ERIEPSPYKFTFNKKETCKLVCTKTYHTEKAEDKQKLEFLKKSMLLNYQHHWIVDNMP
                     VTWCYDVEDGQRFCNPGFPIGCYITDKGHAKDACVISSDFHERDTFYIFNHVDIKIYY
                     HVVETGSMGARLVAAKLEPKSFKHTHIDKPDCSGPPMDISNKASGEIKIAYTYSVSFE
                     EDDKIRWASRWDYILESMPHTHIQWFSIMNSLVIVLFLSGMVAMIMLRTLHKDIARYN
                     QMDSTEDAQEEFGWKLVHGDIFRPPRKGMLLSVFLGSGTQILIMTFVTLFFACLGFLS
                     PANRGALMTCAVVLWVLLGTPAGYVAARFYKSFGGEKWKTNVLLTSFLCPGIVFADFF
                     IMNLILWGEGSSAAIPFGTLVAILALWFCISVPLTFIGAYFGFKKNAIEHPVRTNQIP
                     RQIPEQSFYTKPLPGIIMGGILPFGCIFIQLFFILNSIWSHQMYYMFGFLFLVFIILV
                     ITCSEATILLCYFHLCAEDYHWQWRSFLTSGFTAVYFLIYAVHYFFSKLQITGTASTI
                     LYFGYTMIMVLIFFLFTGTIGFFACFWFVTKIYSVVKVD"
     exon            307..374
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /inference="alignment:Splign:2.1.0"
     exon            375..468
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /inference="alignment:Splign:2.1.0"
     exon            469..596
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /inference="alignment:Splign:2.1.0"
     exon            597..726
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /inference="alignment:Splign:2.1.0"
     exon            727..851
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /inference="alignment:Splign:2.1.0"
     exon            852..963
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /inference="alignment:Splign:2.1.0"
     exon            964..1043
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /inference="alignment:Splign:2.1.0"
     exon            1044..1152
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /inference="alignment:Splign:2.1.0"
     exon            1153..1285
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /inference="alignment:Splign:2.1.0"
     exon            1286..1405
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /inference="alignment:Splign:2.1.0"
     exon            1406..1463
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /inference="alignment:Splign:2.1.0"
     exon            1464..1623
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /inference="alignment:Splign:2.1.0"
     exon            1624..1775
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /inference="alignment:Splign:2.1.0"
     exon            1776..1887
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /inference="alignment:Splign:2.1.0"
     exon            1888..2059
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /inference="alignment:Splign:2.1.0"
     exon            2060..3417
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2162..2167
                     /regulatory_class="polyA_signal_sequence"
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /note="hexamer: ATTAAA"
     polyA_site      2182
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /note="major polyA site"
     regulatory      2740..2745
                     /regulatory_class="polyA_signal_sequence"
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /note="hexamer: AATAAA"
     polyA_site      2760
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
     regulatory      3354..3359
                     /regulatory_class="polyA_signal_sequence"
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /note="hexamer: ATTAAA"
     regulatory      3366..3371
                     /regulatory_class="polyA_signal_sequence"
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
                     /note="hexamer: ACTAAA"
     polyA_site      3375
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
     polyA_site      3389
                     /gene="TM9SF2"
                     /gene_synonym="Lnc-PCIR; P76"
ORIGIN      
        1 agcgcaaccg gaactagcct tctgggggcc ggcttccttt atctctggcg gccttgtagt
       61 cgtctccgag actccccacc cctccttccc tcttgacccc ctaggtttga ttgccctttc
      121 cccgaaacaa ctatcatgag cgcgaggctg ccggtgttgt ctccacctcg gtggccgcgg
      181 ctgttgctgc tgtcgctgct cctgctgggg gcggttcctg gcccgcgccg gagcggcgct
      241 ttctacctgc ccggcctggc gcccgtcaac ttctgcgacg aagaaaaaaa gagcgacgag
      301 tgcaaggccg aaatagaact atttgtgaac agacttgatt cagtggaatc agttcttcct
      361 tatgaataca cagcgtttga tttttgccaa gcatcagaag gaaagcgccc atctgaaaat
      421 cttggtcagg tactattcgg ggaaagaatt gaaccttcac catataagtt tacgtttaat
      481 aagaaggaga cctgtaagct tgtttgtaca aaaacatacc atacagagaa agctgaagac
      541 aaacaaaagt tagaattctt gaaaaaaagc atgttattga attatcaaca tcactggatt
      601 gtggataata tgcctgtaac gtggtgttac gatgttgaag atggtcagag gttctgtaat
      661 cctggatttc ctattggctg ttacattaca gataaaggcc atgcaaaaga tgcctgtgtt
      721 attagttcag atttccatga aagagataca ttttacatct tcaaccatgt tgacatcaaa
      781 atatactatc atgttgttga aactgggtcc atgggagcaa gattagtggc tgctaaactt
      841 gaaccgaaaa gcttcaaaca tacccatata gataaaccag actgctcagg gccccccatg
      901 gacataagta acaaggcttc tggggagata aaaattgcct atacttactc tgttagcttc
      961 gaggaagatg ataagatcag atgggcgtct agatgggact atattctgga gtctatgcct
     1021 catacccaca ttcagtggtt tagcattatg aattccctgg tcattgttct cttcttatct
     1081 ggaatggtag ctatgattat gttacggaca ctgcacaaag atattgctag atataatcag
     1141 atggactcta cggaagatgc ccaggaagaa tttggctgga aacttgttca tggtgatata
     1201 ttccgtcctc caagaaaagg gatgctgcta tcagtctttc taggatccgg gacacagatt
     1261 ttaattatga cctttgtgac tctatttttc gcttgcctgg gatttttgtc acctgccaac
     1321 cgaggagcgc tgatgacgtg tgctgtggtc ctgtgggtgc tgctgggcac ccctgcaggc
     1381 tatgttgctg ccagattcta taagtccttt ggaggtgaga agtggaaaac aaatgtttta
     1441 ttaacatcat ttctttgtcc tgggattgta tttgctgact tctttataat gaatctgatc
     1501 ctctggggag aaggatcttc agcagctatt ccttttggga cactggttgc catattggcc
     1561 ctttggttct gcatatctgt gcctctgacg tttattggtg catactttgg ttttaagaag
     1621 aatgccattg aacacccagt tcgaaccaat cagattccac gtcagattcc tgaacagtcg
     1681 ttctacacga agcccttgcc tggtattatc atgggaggga ttttgccctt tggctgcatc
     1741 tttatacaac ttttcttcat tctgaatagt atttggtcac accagatgta ttacatgttt
     1801 ggcttcctat ttctggtgtt tatcattttg gttattacct gttctgaagc aactatactt
     1861 ctttgctatt tccacctatg tgcagaggat tatcattggc aatggcgttc attccttacg
     1921 agtggcttta ctgcagttta tttcttaatc tatgcagtac actacttctt ttcaaaactg
     1981 cagatcacgg gaacagcaag cacaattctg tactttggtt ataccatgat aatggttttg
     2041 atcttctttc tttttacagg aacaattggc ttctttgcat gcttttggtt tgttaccaaa
     2101 atatacagtg tggtgaaggt tgactgaaga agtccagtgt gtccagttaa aacagaaata
     2161 aattaaactc ttcatcaaca aagacctgtt tttgtgactg ccttgagttt tatcagaatt
     2221 attggcctag taatccttca gaaacaccgt aattctaaat aaacctcttc ccatacacct
     2281 ttcccccata agatgtgtct tcaacactat aaagcatttg tattgtgatt tgattaagta
     2341 tatatttggt tgttctcaat gaagagcaaa tttaaatatt atgtgcattt gtaaatacag
     2401 tagctataaa attttccata cttctaatgg cagaatagag gaggccatat taaataatac
     2461 tgatgaaagg caggacactg cattgtaaat aggattttct aggctcggta ggcagaaaga
     2521 attatttttc tttgaaggaa ataacttttt atcatggtaa ttttgaagga tgattcctat
     2581 gatgtgttca ccaggggaat gtggctttta aagaaaatct tctattggtt gtaactgttc
     2641 atatcttctt acttttctgt gttgacttca ttattcccat ggtattggcc ttttaaacta
     2701 tgtgcctctg agtctttcaa tttataaatt tgttatctta ataaatatta taaaaatgtc
     2761 ttcattgcat cattacctat tatatattca aggaggttct gtaaatacag atctatttac
     2821 caaggtgttt tgaaatgatt tatactattt tatcagattt tactggattt tgttaatgta
     2881 acactttctg agttttgatc tgaatggaat ttcactgtgt aaggcattgt ctaaaatgtt
     2941 cactgtgagg cagtagagga ggttgaagtc atgcatatct agacagatga attatctgca
     3001 agtacttaag gtggagcctt actacattgt cattaaggag tttctatttt tgacttgttt
     3061 ttcaaaatac agtgttttaa gtcaggtttt attacctgga cattagcaat cactagcaag
     3121 tcttcatctt tatgatttca ttgttttaat ttagatttca caaacagttt tacttctaag
     3181 agttaagaaa tgcactgtct ttcacattca tctgactaat tgaaatccat ttatgtagaa
     3241 tataggaatg gggggtgatt ctgaagtatc ggtctgcttg tatctgtgag catattcatt
     3301 tgtattttag ggtctctctg cttgctgctt aggagagcaa atcagatact gtcattaaac
     3361 ttacaactaa aattactagc tgtcacttat atgatattgc tgggttctta ctgaata
//
