LOCUS       NM_080387               1973 bp    mRNA    linear   PRI 09-FEB-2025
DEFINITION  Homo sapiens C-type lectin domain family 4 member D (CLEC4D), mRNA.
ACCESSION   NM_080387
VERSION     NM_080387.5
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 1973)
  AUTHORS   Li,D., Lu,L., Kong,W., Xia,X., Pan,Y., Li,J., Wang,J., Wang,T.,
            Liang,J., Dou,H. and Hou,Y.
  TITLE     C-type lectin receptor Dectin3 deficiency balances the accumulation
            and function of FoxO1-mediated LOX-1+ M-MDSCs in relieving
            lupus-like symptoms
  JOURNAL   Cell Death Dis 12 (9), 829 (2021)
   PUBMED   34480018
  REMARK    GeneRIF: C-type lectin receptor Dectin3 deficiency balances the
            accumulation and function of FoxO1-mediated LOX-1(+) M-MDSCs in
            relieving lupus-like symptoms.
            Erratum:[Cell Death Dis. 2023 Apr 25;14(4):291. doi:
            10.1038/s41419-023-05809-w.. PMID: 37185572]
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1973)
  AUTHORS   Li,C., Xue,V.W., Wang,Q.M., Lian,G.Y., Huang,X.R., Lee,T.L.,
            To,K.F., Tang,P.M. and Lan,H.Y.
  TITLE     The Mincle/Syk/NF-kappaB Signaling Circuit Is Essential for
            Maintaining the Protumoral Activities of Tumor-Associated
            Macrophages
  JOURNAL   Cancer Immunol Res 8 (8), 1004-1017 (2020)
   PUBMED   32532809
  REMARK    GeneRIF: The Mincle/Syk/NF-kappaB Signaling Circuit Is Essential
            for Maintaining the Protumoral Activities of Tumor-Associated
            Macrophages.
REFERENCE   3  (bases 1 to 1973)
  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 1973)
  AUTHORS   Preite,N.W., Feriotti,C., Souza de Lima,D., da Silva,B.B.,
            Condino-Neto,A., Pontillo,A., Calich,V.L.G. and Loures,F.V.
  TITLE     The Syk-Coupled C-Type Lectin Receptors Dectin-2 and Dectin-3 Are
            Involved in Paracoccidioides brasiliensis Recognition by Human
            Plasmacytoid Dendritic Cells
  JOURNAL   Front Immunol 9, 464 (2018)
   PUBMED   29616019
  REMARK    GeneRIF: The Syk-Coupled C-Type Lectin Receptors Dectin-2 and
            Dectin-3 Are Involved in Paracoccidioides brasiliensis Recognition
            by Human Plasmacytoid Dendritic Cells.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1973)
  AUTHORS   Sahni,N., Yi,S., Taipale,M., Fuxman Bass,J.I.,
            Coulombe-Huntington,J., Yang,F., Peng,J., Weile,J., Karras,G.I.,
            Wang,Y., Kovacs,I.A., Kamburov,A., Krykbaeva,I., Lam,M.H.,
            Tucker,G., Khurana,V., Sharma,A., Liu,Y.Y., Yachie,N., Zhong,Q.,
            Shen,Y., Palagi,A., San-Miguel,A., Fan,C., Balcha,D., Dricot,A.,
            Jordan,D.M., Walsh,J.M., Shah,A.A., Yang,X., Stoyanova,A.K.,
            Leighton,A., Calderwood,M.A., Jacob,Y., Cusick,M.E.,
            Salehi-Ashtiani,K., Whitesell,L.J., Sunyaev,S., Berger,B.,
            Barabasi,A.L., Charloteaux,B., Hill,D.E., Hao,T., Roth,F.P.,
            Xia,Y., Walhout,A.J.M., Lindquist,S. and Vidal,M.
  TITLE     Widespread macromolecular interaction perturbations in human
            genetic disorders
  JOURNAL   Cell 161 (3), 647-660 (2015)
   PUBMED   25910212
REFERENCE   6  (bases 1 to 1973)
  AUTHORS   Graham,L.M., Gupta,V., Schafer,G., Reid,D.M., Kimberg,M.,
            Dennehy,K.M., Hornsell,W.G., Guler,R., Campanero-Rhodes,M.A.,
            Palma,A.S., Feizi,T., Kim,S.K., Sobieszczuk,P., Willment,J.A. and
            Brown,G.D.
  TITLE     The C-type lectin receptor CLECSF8 (CLEC4D) is expressed by myeloid
            cells and triggers cellular activation through Syk kinase
  JOURNAL   J Biol Chem 287 (31), 25964-25974 (2012)
   PUBMED   22689578
  REMARK    GeneRIF: CLECSF8 functions as an activation receptor on myeloid
            cells and associates with a novel adaptor molecule
REFERENCE   7  (bases 1 to 1973)
  AUTHORS   Flornes,L.M., Bryceson,Y.T., Spurkland,A., Lorentzen,J.C.,
            Dissen,E. and Fossum,S.
  TITLE     Identification of lectin-like receptors expressed by antigen
            presenting cells and neutrophils and their mapping to a novel gene
            complex
  JOURNAL   Immunogenetics 56 (7), 506-517 (2004)
   PUBMED   15368084
REFERENCE   8  (bases 1 to 1973)
  AUTHORS   Arce,I., Martinez-Munoz,L., Roda-Navarro,P. and Fernandez-Ruiz,E.
  TITLE     The human C-type lectin CLECSF8 is a novel monocyte/macrophage
            endocytic receptor
  JOURNAL   Eur J Immunol 34 (1), 210-220 (2004)
   PUBMED   14971047
  REMARK    GeneRIF: Cross-linking of the receptor leads to a rapid
            internalization suggesting that CLECSF8 constitutes and endocytic
            receptor.
REFERENCE   9  (bases 1 to 1973)
  AUTHORS   Ebner,S., Sharon,N. and Ben-Tal,N.
  TITLE     Evolutionary analysis reveals collective properties and specificity
            in the C-type lectin and lectin-like domain superfamily
  JOURNAL   Proteins 53 (1), 44-55 (2003)
   PUBMED   12945048
REFERENCE   10 (bases 1 to 1973)
  AUTHORS   Drickamer,K.
  TITLE     C-type lectin-like domains
  JOURNAL   Curr Opin Struct Biol 9 (5), 585-590 (1999)
   PUBMED   10508765
  REMARK    Review article
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC092746.9, BC032313.1 and
            BI909298.1.
            
            On Nov 23, 2018 this sequence version replaced NM_080387.4.
            
            Summary: This gene encodes a member of the C-type lectin/C-type
            lectin-like domain (CTL/CTLD) superfamily. Members of this family
            share a common protein fold and have diverse functions, such as
            cell adhesion, cell-cell signalling, glycoprotein turnover, and
            roles in inflammation and immune response. This gene is closely
            linked to other CTL/CTLD superfamily members on chromosome 12p13 in
            the natural killer gene complex region. [provided by RefSeq, Jul
            2008].
            
            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 :: BC032313.1, AY115592.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000299665.3/ ENSP00000299665.2
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-37                AC092746.9         65169-65205         c
            38-171              BC032313.1         1-134
            172-412             BI909298.1         83-323
            413-1973            BC032313.1         376-1936
FEATURES             Location/Qualifiers
     source          1..1973
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="12"
                     /map="12p13.31"
     gene            1..1973
                     /gene="CLEC4D"
                     /gene_synonym="CD368; CLEC-6; CLEC6; CLECSF8; Dectin-3;
                     MCL; MPCL"
                     /note="C-type lectin domain family 4 member D"
                     /db_xref="GeneID:338339"
                     /db_xref="HGNC:HGNC:14554"
                     /db_xref="MIM:609964"
     exon            1..258
                     /gene="CLEC4D"
                     /gene_synonym="CD368; CLEC-6; CLEC6; CLECSF8; Dectin-3;
                     MCL; MPCL"
                     /inference="alignment:Splign:2.1.0"
     CDS             231..878
                     /gene="CLEC4D"
                     /gene_synonym="CD368; CLEC-6; CLEC6; CLECSF8; Dectin-3;
                     MCL; MPCL"
                     /note="C-type (calcium dependent, carbohydrate-recognition
                     domain) lectin, superfamily member 8; C-type lectin-like
                     receptor 6; macrophage C-type lectin; C-type lectin
                     receptor; C-type lectin superfamily member 8; Dectin 3;
                     DC-associated C-type lectin 3; dendritic cell-associated
                     C-type lectin 3"
                     /codon_start=1
                     /product="C-type lectin domain family 4 member D"
                     /protein_id="NP_525126.2"
                     /db_xref="CCDS:CCDS8593.1"
                     /db_xref="GeneID:338339"
                     /db_xref="HGNC:HGNC:14554"
                     /db_xref="MIM:609964"
                     /translation="MGLEKPQSKLEGGMHPQLIPSVIAVVFILLLSVCFIASCLVTHH
                     NFSRCKRGTGVHKLEHHAKLKCIKEKSELKSAEGSTWNCCPIDWRAFQSNCYFPLTDN
                     KTWAESERNCSGMGAHLMTISTEAEQNFIIQFLDRRLSYFLGLRDENAKGQWRWVDQT
                     PFNPRRVFWHKNEPDNSQGENCVVLVYNQDKWAWNDVPCNFEASRICKIPGTTLN"
     exon            259..351
                     /gene="CLEC4D"
                     /gene_synonym="CD368; CLEC-6; CLEC6; CLECSF8; Dectin-3;
                     MCL; MPCL"
                     /inference="alignment:Splign:2.1.0"
     exon            352..462
                     /gene="CLEC4D"
                     /gene_synonym="CD368; CLEC-6; CLEC6; CLECSF8; Dectin-3;
                     MCL; MPCL"
                     /inference="alignment:Splign:2.1.0"
     exon            463..614
                     /gene="CLEC4D"
                     /gene_synonym="CD368; CLEC-6; CLEC6; CLECSF8; Dectin-3;
                     MCL; MPCL"
                     /inference="alignment:Splign:2.1.0"
     exon            615..730
                     /gene="CLEC4D"
                     /gene_synonym="CD368; CLEC-6; CLEC6; CLECSF8; Dectin-3;
                     MCL; MPCL"
                     /inference="alignment:Splign:2.1.0"
     exon            731..1973
                     /gene="CLEC4D"
                     /gene_synonym="CD368; CLEC-6; CLEC6; CLECSF8; Dectin-3;
                     MCL; MPCL"
                     /inference="alignment:Splign:2.1.0"
     polyA_site      986
                     /gene="CLEC4D"
                     /gene_synonym="CD368; CLEC-6; CLEC6; CLECSF8; Dectin-3;
                     MCL; MPCL"
                     /note="major polyA site"
     regulatory      1947..1952
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CLEC4D"
                     /gene_synonym="CD368; CLEC-6; CLEC6; CLECSF8; Dectin-3;
                     MCL; MPCL"
                     /note="hexamer: AATAAA"
     polyA_site      1973
                     /gene="CLEC4D"
                     /gene_synonym="CD368; CLEC-6; CLEC6; CLECSF8; Dectin-3;
                     MCL; MPCL"
                     /note="major polyA site"
ORIGIN      
        1 gcctcatctc ccggaatgta tcaaaggaaa cccctgtctt tgaaaaagac ttcttttgag
       61 ctaactttct tatactggta cctttctaat ctcactacaa tatgtaacat tggtgttcga
      121 tctcaagtat ttctgaatat attcccctat ccacagaaat atactctggg ggaaaaaaaa
      181 tagaacaaat tcttgccgtc ctgaccattg aacaagagac taattagaca atggggctag
      241 aaaaacctca aagtaaactg gaaggaggca tgcatcccca gctgatacct tcggttattg
      301 ctgtagtttt catcttactt ctcagtgtct gttttattgc aagttgtttg gtgactcatc
      361 acaacttttc acgctgtaag agaggcacag gagtgcacaa gttagagcac catgcaaagc
      421 tcaaatgcat caaagagaaa tcagaactga aaagtgctga agggagcacc tggaactgtt
      481 gtcctattga ctggagagcc ttccagtcca actgctattt tcctcttact gacaacaaga
      541 cgtgggctga gagtgaaagg aactgttcag ggatgggggc ccatctgatg accatcagca
      601 cggaagctga gcagaacttt attattcagt ttctggatag acggctttcc tatttccttg
      661 gacttagaga tgagaatgcc aaaggtcagt ggcgttgggt ggaccagacg ccatttaacc
      721 cacgcagagt attctggcat aagaatgaac ccgacaactc tcagggagaa aactgtgttg
      781 ttcttgttta taaccaagat aaatgggcct ggaatgatgt tccttgtaac tttgaagcaa
      841 gtaggatttg taaaatacct ggaacaacat tgaactagaa actcagaaag tggtccttgt
      901 gatggaaaga gaaaagaaaa accaattaga ataaggcaga atgtacgtgc gtcattggaa
      961 cacagaaaac atgctggttc atacagcgtt tttagtcata atggtctttt ttattttgtt
     1021 tgattcattc gagacaacat gtgtgtatgt gtgtgtgtgt gtgtgtagat aatgtggttt
     1081 ttgtatggtg tttgatggaa ggaataatct ttctttgctt tcttagtagt atttcaaggt
     1141 gtttactttt caattggtgt gcactgaatg catgtatgga agaatagcgt gaataatgca
     1201 atctctttgt catttttccc cttctcagac tcttagctct taaaattcaa agatgggata
     1261 ttctaactgg tagtggtgca tcatttttaa cccaaatatt gcaagcactt taaagatttg
     1321 aaaccacatt tttattgttt gatgtttcat tttcagactt tttaatgtca gtcattacaa
     1381 ttacattgca tgaggaaaat ttttccagaa caacagtgtg gaatagttct gaattatgct
     1441 gttctacaga tagaaaaaaa gtccaaatgc ctttaaaaat ttacttctta ctccacccaa
     1501 cacgtttttg caaagcaaga agtctttgta agacacctta aacaaagtcc ttcaattcta
     1561 cagcagagga aataaaatcc cccagaagcc aaagggctca ccttcacatt gttagttcat
     1621 gacagaccca ggtgtgcttc attagagata acatacattc cctttggtat cacaggaagt
     1681 tactggggat tactcgacct cattacttag ctaacgactg gataaaattt cttaattgtt
     1741 tgaagtaaca ttgtattcgt gtttgcatta ttaatttgaa tagaaaataa tcacattttc
     1801 aacccattta tacaaattgt taatgtttct ttagagctgt ataactatag tttgaactag
     1861 caaggaagtt attgttttga caaccagaaa ttatgctttt ctggtgcatg aaacattaat
     1921 tgcaaagggc agtcacatcc aactttaata aaatatggtg gtctttctta aaa
//
