LOCUS       NM_001330070            1660 bp    mRNA    linear   PRI 20-SEP-2024
DEFINITION  Homo sapiens C-type lectin domain containing 10A (CLEC10A),
            transcript variant 3, mRNA.
ACCESSION   NM_001330070 XM_005256412
VERSION     NM_001330070.2
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 1660)
  AUTHORS   Zou,M., Wu,H., Zhou,M., Xiao,F., Abudushalamu,G., Yao,Y., Zhao,F.,
            Gao,W., Yan,X., Fan,X. and Wu,G.
  TITLE     High expression of CLEC10A in head and neck squamous cell carcinoma
            indicates favorable prognosis and high-level immune infiltration
            status
  JOURNAL   Cell Immunol 372, 104472 (2022)
   PUBMED   35093731
  REMARK    GeneRIF: High expression of CLEC10A in head and neck squamous cell
            carcinoma indicates favorable prognosis and high-level immune
            infiltration status.
REFERENCE   2  (bases 1 to 1660)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   3  (bases 1 to 1660)
  AUTHORS   Thepaut,M., Luczkowiak,J., Vives,C., Labiod,N., Bally,I.,
            Lasala,F., Grimoire,Y., Fenel,D., Sattin,S., Thielens,N.,
            Schoehn,G., Bernardi,A., Delgado,R. and Fieschi,F.
  TITLE     DC/L-SIGN recognition of spike glycoprotein promotes SARS-CoV-2
            trans-infection and can be inhibited by a glycomimetic antagonist
  JOURNAL   PLoS Pathog 17 (5), e1009576 (2021)
   PUBMED   34015061
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 1660)
  AUTHORS   Lenza,M.P., Oyenarte,I., Diercks,T., Quintana,J.I., Gimeno,A.,
            Coelho,H., Diniz,A., Peccati,F., Delgado,S., Bosch,A., Valle,M.,
            Millet,O., Abrescia,N.G.A., Palazon,A., Marcelo,F.,
            Jimenez-Oses,G., Jimenez-Barbero,J., Arda,A. and Ereno-Orbea,J.
  TITLE     Structural Characterization of N-Linked Glycans in the Receptor
            Binding Domain of the SARS-CoV-2 Spike Protein and their
            Interactions with Human Lectins
  JOURNAL   Angew Chem Int Ed Engl 59 (52), 23763-23771 (2020)
   PUBMED   32915505
REFERENCE   5  (bases 1 to 1660)
  AUTHORS   Gao,C., Zeng,J., Jia,N., Stavenhagen,K., Matsumoto,Y., Zhang,H.,
            Li,J., Hume,A.J., Muhlberger,E., van Die,I., Kwan,J., Tantisira,K.,
            Emili,A. and Cummings,R.D.
  TITLE     SARS-CoV-2 Spike Protein Interacts with Multiple Innate Immune
            Receptors
  JOURNAL   bioRxiv (2020)
   PUBMED   32766577
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1660)
  AUTHORS   Napoletano,C., Zizzari,I.G., Rughetti,A., Rahimi,H., Irimura,T.,
            Clausen,H., Wandall,H.H., Belleudi,F., Bellati,F., Pierelli,L.,
            Frati,L. and Nuti,M.
  TITLE     Targeting of macrophage galactose-type C-type lectin (MGL) induces
            DC signaling and activation
  JOURNAL   Eur J Immunol 42 (4), 936-945 (2012)
   PUBMED   22531918
  REMARK    GeneRIF: MGL engagement improved DC performance as
            antigen-presenting cells, promoting the upregulation of maturation
            markers, a decrease in phagocytosis, an enhancement of motility,
            and most importantly an increase in antigen-specific CD8(+) T-cell
            activation.
REFERENCE   7  (bases 1 to 1660)
  AUTHORS   Davila,S., Froeling,F.E., Tan,A., Bonnard,C., Boland,G.J.,
            Snippe,H., Hibberd,M.L. and Seielstad,M.
  TITLE     New genetic associations detected in a host response study to
            hepatitis B vaccine
  JOURNAL   Genes Immun 11 (3), 232-238 (2010)
   PUBMED   20237496
  REMARK    GeneRIF: Observational study of gene-disease association. (HuGE
            Navigator)
REFERENCE   8  (bases 1 to 1660)
  AUTHORS   Iijima,M., Tomita,M., Morozumi,S., Kawagashira,Y., Nakamura,T.,
            Koike,H., Katsuno,M., Hattori,N., Tanaka,F., Yamamoto,M. and
            Sobue,G.
  TITLE     Single nucleotide polymorphism of TAG-1 influences IVIg
            responsiveness of Japanese patients with CIDP
  JOURNAL   Neurology 73 (17), 1348-1352 (2009)
   PUBMED   19776380
  REMARK    GeneRIF: Observational study of gene-disease association. (HuGE
            Navigator)
REFERENCE   9  (bases 1 to 1660)
  AUTHORS   van Vliet,S.J., Steeghs,L., Bruijns,S.C., Vaezirad,M.M., Snijders
            Blok,C., Arenas Busto,J.A., Deken,M., van Putten,J.P. and van
            Kooyk,Y.
  TITLE     Variation of Neisseria gonorrhoeae lipooligosaccharide directs
            dendritic cell-induced T helper responses
  JOURNAL   PLoS Pathog 5 (10), e1000625 (2009)
   PUBMED   19834553
REFERENCE   10 (bases 1 to 1660)
  AUTHORS   Suzuki,N., Yamamoto,K., Toyoshima,S., Osawa,T. and Irimura,T.
  TITLE     Molecular cloning and expression of cDNA encoding human macrophage
            C-type lectin. Its unique carbohydrate binding specificity for Tn
            antigen
  JOURNAL   J Immunol 156 (1), 128-135 (1996)
   PUBMED   8598452
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC120057.9 and BM974488.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Jun 2, 2019 this sequence version replaced NM_001330070.1.
            
            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. The encoded type 2
            transmembrane protein may function as a cell surface antigen. Two
            transcript variants encoding distinct isoforms have been identified
            for this gene. [provided by RefSeq, Jul 2008].
            
            Transcript Variant: This variant (3) uses an alternate in-frame
            splice site in the 5' coding region compared to variant 1. The
            encoded isoform (3) is shorter than isoform 1.
            
            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 :: DRR138524.980570.1,
                                           DRR138528.543734.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968540 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000416562.7/ ENSP00000414938.2
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-200               AC120057.9         34198-34397         c
            201-340             AC120057.9         32892-33031         c
            341-457             AC120057.9         32143-32259         c
            458-553             AC120057.9         31038-31133         c
            554-625             AC120057.9         30879-30950         c
            626-712             AC120057.9         30131-30217         c
            713-867             AC120057.9         29877-30031         c
            868-944             AC120057.9         29536-29612         c
            945-1660            BM974488.1         18-733              c
FEATURES             Location/Qualifiers
     source          1..1660
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="17"
                     /map="17p13.1"
     gene            1..1660
                     /gene="CLEC10A"
                     /gene_synonym="CD301; CLECSF13; CLECSF14; HML; HML2; MGL"
                     /note="C-type lectin domain containing 10A"
                     /db_xref="GeneID:10462"
                     /db_xref="HGNC:HGNC:16916"
                     /db_xref="MIM:605999"
     exon            1..200
                     /gene="CLEC10A"
                     /gene_synonym="CD301; CLECSF13; CLECSF14; HML; HML2; MGL"
                     /inference="alignment:Splign:2.1.0"
     exon            201..340
                     /gene="CLEC10A"
                     /gene_synonym="CD301; CLECSF13; CLECSF14; HML; HML2; MGL"
                     /inference="alignment:Splign:2.1.0"
     CDS             274..1143
                     /gene="CLEC10A"
                     /gene_synonym="CD301; CLECSF13; CLECSF14; HML; HML2; MGL"
                     /note="isoform 3 is encoded by transcript variant 3;
                     macrophage lectin 2 (calcium dependent); C-type (calcium
                     dependent, carbohydrate-recognition domain) lectin,
                     superfamily member 14 (macrophage-derived); C-type
                     (calcium dependent, carbohydrate-recognition domain)
                     lectin, superfamily member 13 (macrophage-derived); C-type
                     lectin domain family 10 member A"
                     /codon_start=1
                     /product="C-type lectin domain family 10 member A isoform
                     3"
                     /protein_id="NP_001316999.1"
                     /db_xref="CCDS:CCDS82049.1"
                     /db_xref="GeneID:10462"
                     /db_xref="HGNC:HGNC:16916"
                     /db_xref="MIM:605999"
                     /translation="MTRTYENFQYLENKVKVQGFKNGPLPLQSLLQRLCSGPCHLLLS
                     LGLGLLLLVIICVVGFQNSKFQRDLVTLRTDFSNFTSNTVAEIQALTSQGSSLEETIA
                     SLKAEVEGFKQERQAVHSEMLLRVQQLVQDLKKLTCQVATLNNNASTEGTCCPVNWVE
                     HQDSCYWFSHSGMSWAEAEKYCQLKNAHLVVINSREEQNFVQKYLGSAYTWMGLSDPE
                     GAWKWVDGTDYATGFQNWKPGQPDDWQGHGLGGGEDCAHFHPDGRWNDDVCQRPYHWV
                     CEAGLGQTSQESH"
     exon            341..457
                     /gene="CLEC10A"
                     /gene_synonym="CD301; CLECSF13; CLECSF14; HML; HML2; MGL"
                     /inference="alignment:Splign:2.1.0"
     exon            458..553
                     /gene="CLEC10A"
                     /gene_synonym="CD301; CLECSF13; CLECSF14; HML; HML2; MGL"
                     /inference="alignment:Splign:2.1.0"
     exon            554..625
                     /gene="CLEC10A"
                     /gene_synonym="CD301; CLECSF13; CLECSF14; HML; HML2; MGL"
                     /inference="alignment:Splign:2.1.0"
     exon            626..712
                     /gene="CLEC10A"
                     /gene_synonym="CD301; CLECSF13; CLECSF14; HML; HML2; MGL"
                     /inference="alignment:Splign:2.1.0"
     exon            713..867
                     /gene="CLEC10A"
                     /gene_synonym="CD301; CLECSF13; CLECSF14; HML; HML2; MGL"
                     /inference="alignment:Splign:2.1.0"
     exon            868..974
                     /gene="CLEC10A"
                     /gene_synonym="CD301; CLECSF13; CLECSF14; HML; HML2; MGL"
                     /inference="alignment:Splign:2.1.0"
     exon            975..1660
                     /gene="CLEC10A"
                     /gene_synonym="CD301; CLECSF13; CLECSF14; HML; HML2; MGL"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1376..1381
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CLEC10A"
                     /gene_synonym="CD301; CLECSF13; CLECSF14; HML; HML2; MGL"
                     /note="hexamer: AATAAA"
     polyA_site      1402
                     /gene="CLEC10A"
                     /gene_synonym="CD301; CLECSF13; CLECSF14; HML; HML2; MGL"
                     /note="major polyA site"
     regulatory      1637..1642
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CLEC10A"
                     /gene_synonym="CD301; CLECSF13; CLECSF14; HML; HML2; MGL"
                     /note="hexamer: AATATA"
     polyA_site      1660
                     /gene="CLEC10A"
                     /gene_synonym="CD301; CLECSF13; CLECSF14; HML; HML2; MGL"
                     /note="major polyA site"
ORIGIN      
        1 ctcatttact gtctaaagtt gaggagatgg gatgtcccag atgatagggc tcctgggatt
       61 tcagacccaa gaccagcagg actccagtca cctctacccc agctctccag gacacagcgc
      121 tcccaactct gagtgacgtc ccacctctgg tccttgcagc acaaccaacg tgggaatcac
      181 accctccaga cctcccacag ctccacccca gactgggcgc cggccctgcc tccatttcag
      241 ctgtgacaac ctcagagccg tgttggccca agcatgacaa ggacgtatga aaacttccag
      301 tacttggaga ataaggtgaa agtccagggg tttaaaaatg ggccacttcc tctccagtcc
      361 ctcctgcagc gtctctgctc tgggccctgc catctcctgc tgtccctggg cctcggcctc
      421 ctgctgctgg tcatcatctg tgtggttgga ttccaaaatt ccaaatttca gagggacctg
      481 gtgaccctga gaacagattt tagcaacttc acctcaaaca ctgtggcgga gatccaggca
      541 ctgacttccc agggcagcag cttggaagaa acgatagcat ctctgaaagc tgaggtggag
      601 ggtttcaagc aggaacggca ggcagttcat tctgaaatgc tcctgcgagt ccagcagctg
      661 gtgcaagacc tgaagaaact gacctgccag gtggctactc tcaacaacaa tgcctccact
      721 gaagggacct gctgccctgt caactgggtg gagcaccaag acagctgcta ctggttctct
      781 cactctggga tgtcctgggc cgaggctgag aagtactgcc agctgaagaa cgcccacctg
      841 gtggtcatca actccaggga ggagcagaat tttgtccaga aatatctagg ctccgcatac
      901 acctggatgg gcctcagtga ccctgaagga gcctggaagt gggtggatgg aacagactat
      961 gcgaccggct tccagaactg gaagccaggc cagccagacg actggcaggg gcacgggctg
     1021 ggtggaggcg aggactgtgc tcacttccat ccagacggca ggtggaatga cgacgtctgc
     1081 cagaggccct accactgggt ctgcgaggct ggcctgggtc agaccagcca ggagagtcac
     1141 tgagctgcct ttggtgggac cacccggcca cagaaatggc ggtgggagga ggactcttct
     1201 cacgacctcc tcgcaagacc gctctgggag agaaataagc actgggagat tggaagcact
     1261 gctaacattt tgaatttttt tctctttaat tttaaaaaga tggtatagtg ttcttaagct
     1321 tttatttttt ttccaacttt tgaaagtcaa cttcatgaag gtataatttt tacataataa
     1381 aaatgcactc atttaaagag tagagatgac tttgacaaat atgcatgcct aggtgactac
     1441 cactccgatc gcaatagata acattgccat cgcccccacc agtcccctca tgcctctggg
     1501 cagtccaacc acttccctgt ttccaggcca gtgatctact tctttttcac tatttattgg
     1561 ccttgcctct tctagagctt ctagaacttc atataagtga aatcatacac tctcgtgtat
     1621 atacttcata taagtgaata tatactctcg tgagaactta
//
