LOCUS       NM_022349               1302 bp    mRNA    linear   PRI 03-SEP-2024
DEFINITION  Homo sapiens membrane spanning 4-domains A6A (MS4A6A), transcript
            variant 2, mRNA.
ACCESSION   NM_022349
VERSION     NM_022349.4
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 1302)
  AUTHORS   Lv,W., Lin,S., Zuo,Z., Huang,Z. and Wang,Y.
  TITLE     Involvement of microglia-expressed MS4A6A in the onset of
            glioblastoma
  JOURNAL   Eur J Neurosci 59 (10), 2836-2849 (2024)
   PUBMED   38488530
  REMARK    GeneRIF: Involvement of microglia-expressed MS4A6A in the onset of
            glioblastoma.
REFERENCE   2  (bases 1 to 1302)
  AUTHORS   Bitting,K., Hedgespeth,B., Ehrhardt-Humbert,L.C., Arthur,G.K.,
            Schubert,A.G., Bradding,P., Tilley,S.L. and Cruse,G.
  TITLE     Identification of redundancy between human FcepsilonRIbeta and
            MS4A6A proteins points toward additional complex mechanisms for
            FcepsilonRI trafficking and signaling
  JOURNAL   Allergy 78 (5), 1204-1217 (2023)
   PUBMED   36424895
  REMARK    GeneRIF: Identification of redundancy between human FcepsilonRIbeta
            and MS4A6A proteins points toward additional complex mechanisms for
            FcepsilonRI trafficking and signaling.
REFERENCE   3  (bases 1 to 1302)
  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 1302)
  AUTHORS   Almeida,J.F.F., Dos Santos,L.R., Trancozo,M. and de Paula,F.
  TITLE     Updated Meta-Analysis of BIN1, CR1, MS4A6A, CLU, and ABCA7 Variants
            in Alzheimer's Disease
  JOURNAL   J Mol Neurosci 64 (3), 471-477 (2018)
   PUBMED   29504051
  REMARK    GeneRIF: Meta analysis validated the Alzheimer disease protective
            association for MS4A6A (rs610932) variants.
REFERENCE   5  (bases 1 to 1302)
  AUTHORS   Zuccolo,J., Deng,L., Unruh,T.L., Sanyal,R., Bau,J.A., Storek,J.,
            Demetrick,D.J., Luider,J.M., Auer-Grzesiak,I.A., Mansoor,A. and
            Deans,J.P.
  TITLE     Expression of MS4A and TMEM176 Genes in Human B Lymphocytes
  JOURNAL   Front Immunol 4, 195 (2013)
   PUBMED   23874341
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1302)
  AUTHORS   Deng,Y.L., Liu,L.H., Wang,Y., Tang,H.D., Ren,R.J., Xu,W., Ma,J.F.,
            Wang,L.L., Zhuang,J.P., Wang,G. and Chen,S.D.
  TITLE     The prevalence of CD33 and MS4A6A variant in Chinese Han population
            with Alzheimer's disease
  JOURNAL   Hum Genet 131 (7), 1245-1249 (2012)
   PUBMED   22382309
  REMARK    GeneRIF: data revealed the allele (T) of the rs3865444 polymorphism
            of the CD33 gene and the allele (C) of the rs610932 polymorphism of
            the MS4A6A gene may contribute to Alzheimer's disease risk in the
            Chinese Han population
REFERENCE   7  (bases 1 to 1302)
  AUTHORS   Hollingworth,P., Harold,D., Sims,R., Gerrish,A., Lambert,J.C.,
            Carrasquillo,M.M., Abraham,R., Hamshere,M.L., Pahwa,J.S.,
            Moskvina,V., Dowzell,K., Jones,N., Stretton,A., Thomas,C.,
            Richards,A., Ivanov,D., Widdowson,C., Chapman,J., Lovestone,S.,
            Powell,J., Proitsi,P., Lupton,M.K., Brayne,C., Rubinsztein,D.C.,
            Gill,M., Lawlor,B., Lynch,A., Brown,K.S., Passmore,P.A., Craig,D.,
            McGuinness,B., Todd,S., Holmes,C., Mann,D., Smith,A.D.,
            Beaumont,H., Warden,D., Wilcock,G., Love,S., Kehoe,P.G.,
            Hooper,N.M., Vardy,E.R., Hardy,J., Mead,S., Fox,N.C., Rossor,M.,
            Collinge,J., Maier,W., Jessen,F., Ruther,E., Schurmann,B., Heun,R.,
            Kolsch,H., van den Bussche,H., Heuser,I., Kornhuber,J.,
            Wiltfang,J., Dichgans,M., Frolich,L., Hampel,H., Gallacher,J.,
            Hull,M., Rujescu,D., Giegling,I., Goate,A.M., Kauwe,J.S.,
            Cruchaga,C., Nowotny,P., Morris,J.C., Mayo,K., Sleegers,K.,
            Bettens,K., Engelborghs,S., De Deyn,P.P., Van Broeckhoven,C.,
            Livingston,G., Bass,N.J., Gurling,H., McQuillin,A., Gwilliam,R.,
            Deloukas,P., Al-Chalabi,A., Shaw,C.E., Tsolaki,M., Singleton,A.B.,
            Guerreiro,R., Muhleisen,T.W., Nothen,M.M., Moebus,S., Jockel,K.H.,
            Klopp,N., Wichmann,H.E., Pankratz,V.S., Sando,S.B., Aasly,J.O.,
            Barcikowska,M., Wszolek,Z.K., Dickson,D.W., Graff-Radford,N.R.,
            Petersen,R.C., van Duijn,C.M., Breteler,M.M., Ikram,M.A.,
            DeStefano,A.L., Fitzpatrick,A.L., Lopez,O., Launer,L.J.,
            Seshadri,S., Berr,C., Campion,D., Epelbaum,J., Dartigues,J.F.,
            Tzourio,C., Alperovitch,A., Lathrop,M., Feulner,T.M., Friedrich,P.,
            Riehle,C., Krawczak,M., Schreiber,S., Mayhaus,M., Nicolhaus,S.,
            Wagenpfeil,S., Steinberg,S., Stefansson,H., Stefansson,K.,
            Snaedal,J., Bjornsson,S., Jonsson,P.V., Chouraki,V.,
            Genier-Boley,B., Hiltunen,M., Soininen,H., Combarros,O.,
            Zelenika,D., Delepine,M., Bullido,M.J., Pasquier,F., Mateo,I.,
            Frank-Garcia,A., Porcellini,E., Hanon,O., Coto,E., Alvarez,V.,
            Bosco,P., Siciliano,G., Mancuso,M., Panza,F., Solfrizzi,V.,
            Nacmias,B., Sorbi,S., Bossu,P., Piccardi,P., Arosio,B., Annoni,G.,
            Seripa,D., Pilotto,A., Scarpini,E., Galimberti,D., Brice,A.,
            Hannequin,D., Licastro,F., Jones,L., Holmans,P.A., Jonsson,T.,
            Riemenschneider,M., Morgan,K., Younkin,S.G., Owen,M.J.,
            O'Donovan,M., Amouyel,P. and Williams,J.
  CONSRTM   Alzheimer's Disease Neuroimaging Initiative; CHARGE consortium;
            EADI1 consortium
  TITLE     Common variants at ABCA7, MS4A6A/MS4A4E, EPHA1, CD33 and CD2AP are
            associated with Alzheimer's disease
  JOURNAL   Nat Genet 43 (5), 429-435 (2011)
   PUBMED   21460840
  REMARK    GeneRIF: ABCA7 and the MS4A6A/MS4A4E gene cluster are new
            Alzheimer's disease susceptibility loci.
REFERENCE   8  (bases 1 to 1302)
  AUTHORS   Liang,Y., Buckley,T.R., Tu,L., Langdon,S.D. and Tedder,T.F.
  TITLE     Structural organization of the human MS4A gene cluster on
            Chromosome 11q12
  JOURNAL   Immunogenetics 53 (5), 357-368 (2001)
   PUBMED   11486273
REFERENCE   9  (bases 1 to 1302)
  AUTHORS   Liang,Y. and Tedder,T.F.
  TITLE     Identification of a CD20-, FcepsilonRIbeta-, and HTm4-related gene
            family: sixteen new MS4A family members expressed in human and
            mouse
  JOURNAL   Genomics 72 (2), 119-127 (2001)
   PUBMED   11401424
REFERENCE   10 (bases 1 to 1302)
  AUTHORS   Ishibashi,K., Suzuki,M., Sasaki,S. and Imai,M.
  TITLE     Identification of a new multigene four-transmembrane family (MS4A)
            related to CD20, HTm4 and beta subunit of the high-affinity IgE
            receptor
  JOURNAL   Gene 264 (1), 87-93 (2001)
   PUBMED   11245982
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AP003970.3.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 18, 2020 this sequence version replaced NM_022349.3.
            
            Summary: This gene encodes a member of the membrane-spanning 4A
            gene family. Members of this nascent protein family are
            characterized by common structural features and similar intron/exon
            splice boundaries and display unique expression patterns among
            hematopoietic cells and nonlymphoid tissues. The gene encoding this
            protein is localized to 11q12.1, among a cluster of family members.
            Alternative splicing of this gene results in several transcript
            variants that encode different protein isoforms. [provided by
            RefSeq, Oct 2011].
            
            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 :: AF142409.1, BC108728.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968540, SAMEA2142670
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000528851.6/ ENSP00000431901.1
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-106               AP003970.3         13296-13401         c
            107-267             AP003970.3         11899-12059         c
            268-402             AP003970.3         10149-10283         c
            403-459             AP003970.3         8578-8634           c
            460-669             AP003970.3         5720-5929           c
            670-1302            AP003970.3         2815-3447           c
FEATURES             Location/Qualifiers
     source          1..1302
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="11"
                     /map="11q12.2"
     gene            1..1302
                     /gene="MS4A6A"
                     /gene_synonym="4SPAN3; 4SPAN3.2; CD20L3; CDA01; MS4A6;
                     MST090; MSTP090"
                     /note="membrane spanning 4-domains A6A"
                     /db_xref="GeneID:64231"
                     /db_xref="HGNC:HGNC:13375"
                     /db_xref="MIM:606548"
     exon            1..106
                     /gene="MS4A6A"
                     /gene_synonym="4SPAN3; 4SPAN3.2; CD20L3; CDA01; MS4A6;
                     MST090; MSTP090"
                     /inference="alignment:Splign:2.1.0"
     exon            107..267
                     /gene="MS4A6A"
                     /gene_synonym="4SPAN3; 4SPAN3.2; CD20L3; CDA01; MS4A6;
                     MST090; MSTP090"
                     /inference="alignment:Splign:2.1.0"
     CDS             121..798
                     /gene="MS4A6A"
                     /gene_synonym="4SPAN3; 4SPAN3.2; CD20L3; CDA01; MS4A6;
                     MST090; MSTP090"
                     /note="isoform 2 is encoded by transcript variant 2;
                     four-span transmembrane protein 3.2; MS4A6A-polymorph;
                     four-span transmembrane protein 3.1; HAIRB-iso; CD20-like
                     precusor; membrane-spanning 4-domains, subfamily A, member
                     6A; CD20 antigen-like 3; membrane-spanning 4-domains
                     subfamily A member 6A"
                     /codon_start=1
                     /product="membrane-spanning 4-domains subfamily A member
                     6A isoform 2"
                     /protein_id="NP_071744.2"
                     /db_xref="CCDS:CCDS44615.1"
                     /db_xref="GeneID:64231"
                     /db_xref="HGNC:HGNC:13375"
                     /db_xref="MIM:606548"
                     /translation="MTSQPVPNETIIVLPSNVINFSQAEKPEPTNQGQDSLKKHLHAE
                     IKVIGTIQILCGMMVLSLGIILASASFSPNFTQVTSTLLNSAYPFIGPFFFIISGSLS
                     IATEKRLTKLLVHSSLVGSILSALSALVGFIILSVKQATLNPASLQCELDKNNIPTRS
                     YVSYFYHDSLYTTDCYTAKASLAGTLSLMLICTLLEFCLAVLTAVLRWKQAYSDFPGV
                     SVLAGFT"
     exon            268..402
                     /gene="MS4A6A"
                     /gene_synonym="4SPAN3; 4SPAN3.2; CD20L3; CDA01; MS4A6;
                     MST090; MSTP090"
                     /inference="alignment:Splign:2.1.0"
     exon            403..459
                     /gene="MS4A6A"
                     /gene_synonym="4SPAN3; 4SPAN3.2; CD20L3; CDA01; MS4A6;
                     MST090; MSTP090"
                     /inference="alignment:Splign:2.1.0"
     exon            460..669
                     /gene="MS4A6A"
                     /gene_synonym="4SPAN3; 4SPAN3.2; CD20L3; CDA01; MS4A6;
                     MST090; MSTP090"
                     /inference="alignment:Splign:2.1.0"
     exon            670..1302
                     /gene="MS4A6A"
                     /gene_synonym="4SPAN3; 4SPAN3.2; CD20L3; CDA01; MS4A6;
                     MST090; MSTP090"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1278..1283
                     /regulatory_class="polyA_signal_sequence"
                     /gene="MS4A6A"
                     /gene_synonym="4SPAN3; 4SPAN3.2; CD20L3; CDA01; MS4A6;
                     MST090; MSTP090"
                     /note="hexamer: ATTAAA"
     polyA_site      1302
                     /gene="MS4A6A"
                     /gene_synonym="4SPAN3; 4SPAN3.2; CD20L3; CDA01; MS4A6;
                     MST090; MSTP090"
                     /note="major polyA site"
ORIGIN      
        1 gactttcaga agatgaaggt aagtagaaac cgttgatggg actgagaaac cagagttaaa
       61 acctctttgg agcttctgag gactcagctg gaaccaacgg gcacagttgg caacaccatc
      121 atgacatcac aacctgttcc caatgagacc atcatagtgc tcccatcaaa tgtcatcaac
      181 ttctcccaag cagagaaacc cgaacccacc aaccaggggc aggatagcct gaagaaacat
      241 ctacacgcag aaatcaaagt tattgggact atccagatct tgtgtggcat gatggtattg
      301 agcttgggga tcattttggc atctgcttcc ttctctccaa attttaccca agtgacttct
      361 acactgttga actctgctta cccattcata ggaccctttt tttttatcat ctctggctct
      421 ctatcaatcg ccacagagaa aaggttaacc aagcttttgg tgcatagcag cctggttgga
      481 agcattctga gtgctctgtc tgccctggtg ggtttcatta tcctgtctgt caaacaggcc
      541 accttaaatc ctgcctcact gcagtgtgag ttggacaaaa ataatatacc aacaagaagt
      601 tatgtttctt acttttatca tgattcactt tataccacgg actgctatac agccaaagcc
      661 agtctggctg gaactctctc tctgatgctg atttgcactc tgctggaatt ctgcctagct
      721 gtgctcactg ctgtgctgcg gtggaaacag gcttactctg acttccctgg ggtgagtgtg
      781 ctggccggct tcacttaacc ttgcctagtg tatcttatcc ctgcactgtg ttgagtatgt
      841 caccaagagt ggtagaagga acaatcagtc agtcatgaga tacacatggg agggcatttg
      901 cattgtgatg gaagacagag aagaaaagca gatggcaatt gagtagctga taagctgaaa
      961 attcactgga tatgaaaata gttaatcatg agaaatcaac tgattcaatc ttcctatttt
     1021 gtcagcgaag ggaatgagac tctgggaagt taaatgactg gcctggcatt atgctatgag
     1081 tttgtgcctt tgctgaggac actagaacct ggcttgcctc ccttataagc agaaacaatt
     1141 tctgccacaa ccactagtct ctttaatagt attgacttgg taaagggcat ttacacacgt
     1201 aactggatcc agtgaatgtc ttatgctctg catttgcccc tggtgatctt aaaattcgtt
     1261 tgccttttta aagctatatt aaaaatgtat tgttgaatca aa
//
