LOCUS       NM_013252               3502 bp    mRNA    linear   PRI 08-OCT-2024
DEFINITION  Homo sapiens C-type lectin domain containing 5A (CLEC5A),
            transcript variant 1, mRNA.
ACCESSION   NM_013252
VERSION     NM_013252.3
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 3502)
  AUTHORS   Li,Q., Liu,Y., Wang,X., Xie,C., Mei,X., Cao,W., Guan,W., Lin,X.,
            Xie,X., Zhou,C. and Yi,E.
  TITLE     The influence of CLEC5A on early macrophage-mediated inflammation
            in COPD progression
  JOURNAL   Cell Mol Life Sci 81 (1), 330 (2024)
   PUBMED   39097839
  REMARK    GeneRIF: The influence of CLEC5A on early macrophage-mediated
            inflammation in COPD progression.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3502)
  AUTHORS   Lin,J., Ou,H., Wang,W., Ma,J., Zhang,W. and Liu,Q.
  TITLE     [Overexpression of CLEC5A inhibits cell proliferation and
            metastasis and reverses epithelial-mesenchymal transition in
            hepatocellular carcinoma]
  JOURNAL   Nan Fang Yi Ke Da Xue Xue Bao 43 (1), 85-91 (2023)
   PUBMED   36856214
  REMARK    GeneRIF: [Overexpression of CLEC5A inhibits cell proliferation and
            metastasis and reverses epithelial-mesenchymal transition in
            hepatocellular carcinoma].
REFERENCE   3  (bases 1 to 3502)
  AUTHORS   Machado,T.L., Santos,A.C., Azamor,T., da Silva,A.M.V.,
            Pimenta,V.R., Tubarao,L.N., da Silva,A.D.S., Flores
            Rodrigues,D.D.R., Muller,R., Pinto,M.A., Villar,L.M., Bom,A.P.A.
            and Melgaco,J.G.
  TITLE     CLEC5A expression can be triggered by spike glycoprotein and may be
            a potential target for COVID-19 therapy
  JOURNAL   J Med Virol 95 (1), e28427 (2023)
   PUBMED   36571274
  REMARK    GeneRIF: CLEC5A expression can be triggered by spike glycoprotein
            and may be a potential target for COVID-19 therapy.
REFERENCE   4  (bases 1 to 3502)
  AUTHORS   Sung,P.S., Yang,S.P., Peng,Y.C., Sun,C.P., Tao,M.H. and Hsieh,S.L.
  TITLE     CLEC5A and TLR2 are critical in SARS-CoV-2-induced NET formation
            and lung inflammation
  JOURNAL   J Biomed Sci 29 (1), 52 (2022)
   PUBMED   35820906
  REMARK    GeneRIF: CLEC5A and TLR2 are critical in SARS-CoV-2-induced NET
            formation and lung inflammation.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 3502)
  AUTHORS   Tosiek,M.J., Groesser,K., Pekcec,A., Zwirek,M., Murugesan,G. and
            Borges,E.
  TITLE     Activation of the Innate Immune Checkpoint CLEC5A on Myeloid Cells
            in the Absence of Danger Signals Modulates Macrophages' Function
            but Does Not Trigger the Adaptive T Cell Immune Response
  JOURNAL   J Immunol Res 2022, 9926305 (2022)
   PUBMED   35252461
  REMARK    GeneRIF: Activation of the Innate Immune Checkpoint CLEC5A on
            Myeloid Cells in the Absence of Danger Signals Modulates
            Macrophages' Function but Does Not Trigger the Adaptive T Cell
            Immune Response.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 3502)
  AUTHORS   Watson,A.A. and O'Callaghan,C.A.
  TITLE     Crystallization and X-ray diffraction analysis of human CLEC5A
            (MDL-1), a dengue virus receptor
  JOURNAL   Acta Crystallogr Sect F Struct Biol Cryst Commun 66 (Pt 1), 29-31
            (2010)
   PUBMED   20057064
  REMARK    GeneRIF: The crystal volume per unit weight (VM) was calculated to
            be 2.34 A3 Da-1, with nine molecules per asymmetric unit and a
            solvent content of 47.38%. CLEC5A plays an important role in the
            pathophysiology of dengue-virus-induced disease.
REFERENCE   7  (bases 1 to 3502)
  AUTHORS   Chen,S.T., Lin,Y.L., Huang,M.T., Wu,M.F., Cheng,S.C., Lei,H.Y.,
            Lee,C.K., Chiou,T.W., Wong,C.H. and Hsieh,S.L.
  TITLE     CLEC5A is critical for dengue-virus-induced lethal disease
  JOURNAL   Nature 453 (7195), 672-676 (2008)
   PUBMED   18496526
  REMARK    GeneRIF: blockade of CLEC5A-mediated signalling attenuates the
            production of proinflammatory cytokines by macrophages infected
            with Dengue virus (either alone or complexed with an enhancing
            antibody)
REFERENCE   8  (bases 1 to 3502)
  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   9  (bases 1 to 3502)
  AUTHORS   Drickamer,K.
  TITLE     C-type lectin-like domains
  JOURNAL   Curr Opin Struct Biol 9 (5), 585-590 (1999)
   PUBMED   10508765
  REMARK    Review article
REFERENCE   10 (bases 1 to 3502)
  AUTHORS   Bakker,A.B., Baker,E., Sutherland,G.R., Phillips,J.H. and
            Lanier,L.L.
  TITLE     Myeloid DAP12-associating lectin (MDL)-1 is a cell surface receptor
            involved in the activation of myeloid cells
  JOURNAL   Proc Natl Acad Sci U S A 96 (17), 9792-9796 (1999)
   PUBMED   10449773
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AJ271684.1, BQ005467.1,
            BQ446122.1 and AI418484.1.
            
            On Nov 23, 2018 this sequence version replaced NM_013252.2.
            
            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 II
            transmembrane protein interacts with dnax-activation protein 12 and
            may play a role in cell activation. Alternative splice variants
            have been described but their full-length sequence has not been
            determined. [provided by RefSeq, Jul 2008].
            
            Transcript Variant: This variant (1) represents the longer
            transcript and encodes the longer isoform (1).
            
            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 :: AJ271684.1, SRR1803614.48494.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed/partial sample support
                                           SAMEA1966682, SAMEA1968540
                                           [ECO:0000350]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000546910.6/ ENSP00000449999.1
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1649              AJ271684.1         10-1658
            1650-2141           BQ005467.1         53-544              c
            2142-2719           AJ271684.1         2151-2728
            2720-3344           BQ446122.1         18-642              c
            3345-3502           AI418484.1         14-171              c
FEATURES             Location/Qualifiers
     source          1..3502
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="7"
                     /map="7q34"
     gene            1..3502
                     /gene="CLEC5A"
                     /gene_synonym="CLECSF5; MDL-1; MDL1"
                     /note="C-type lectin domain containing 5A"
                     /db_xref="GeneID:23601"
                     /db_xref="HGNC:HGNC:2054"
                     /db_xref="MIM:604987"
     exon            1..168
                     /gene="CLEC5A"
                     /gene_synonym="CLECSF5; MDL-1; MDL1"
                     /inference="alignment:Splign:2.1.0"
     exon            169..267
                     /gene="CLEC5A"
                     /gene_synonym="CLECSF5; MDL-1; MDL1"
                     /inference="alignment:Splign:2.1.0"
     CDS             189..755
                     /gene="CLEC5A"
                     /gene_synonym="CLECSF5; MDL-1; MDL1"
                     /note="isoform 1 is encoded by transcript variant 1;
                     C-type (calcium dependent, carbohydrate-recognition
                     domain) lectin, superfamily member 5; myeloid
                     DAP12-associating lectin-1; C-type lectin superfamily
                     member 5; C-type lectin domain family 5 member A"
                     /codon_start=1
                     /product="C-type lectin domain family 5 member A isoform
                     1"
                     /protein_id="NP_037384.1"
                     /db_xref="CCDS:CCDS5870.1"
                     /db_xref="GeneID:23601"
                     /db_xref="HGNC:HGNC:2054"
                     /db_xref="MIM:604987"
                     /translation="MNWHMIISGLIVVVLKVVGMTLFLLYFPQIFNKSNDGFTTTRSY
                     GTVSQIFGSSSPSPNGFITTRSYGTVCPKDWEFYQARCFFLSTSESSWNESRDFCKGK
                     GSTLAIVNTPEKLKFLQDITDAEKYFIGLIYHREEKRWRWINNSVFNGNVTNQNQNFN
                     CATIGLTKTFDAASCDISYRRICEKNAK"
     exon            268..327
                     /gene="CLEC5A"
                     /gene_synonym="CLECSF5; MDL-1; MDL1"
                     /inference="alignment:Splign:2.1.0"
     exon            328..396
                     /gene="CLEC5A"
                     /gene_synonym="CLECSF5; MDL-1; MDL1"
                     /inference="alignment:Splign:2.1.0"
     exon            397..533
                     /gene="CLEC5A"
                     /gene_synonym="CLECSF5; MDL-1; MDL1"
                     /inference="alignment:Splign:2.1.0"
     exon            534..640
                     /gene="CLEC5A"
                     /gene_synonym="CLECSF5; MDL-1; MDL1"
                     /inference="alignment:Splign:2.1.0"
     exon            641..3502
                     /gene="CLEC5A"
                     /gene_synonym="CLECSF5; MDL-1; MDL1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3325..3330
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CLEC5A"
                     /gene_synonym="CLECSF5; MDL-1; MDL1"
                     /note="hexamer: AATAAA"
     polyA_site      3344
                     /gene="CLEC5A"
                     /gene_synonym="CLECSF5; MDL-1; MDL1"
                     /note="major polyA site"
     regulatory      3480..3485
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CLEC5A"
                     /gene_synonym="CLECSF5; MDL-1; MDL1"
                     /note="hexamer: ATTAAA"
     polyA_site      3502
                     /gene="CLEC5A"
                     /gene_synonym="CLECSF5; MDL-1; MDL1"
                     /note="major polyA site"
ORIGIN      
        1 gtatttcttg gggatgctac caaggcagag actgtgaaga aggaagaacg ttgcttgggc
       61 aaaaggagca tattctcagg agacggggcc cctgcctgcc acaccaagca ttaggccacc
      121 aggaagaccc ccatctgcaa gcaagcctag ccttccaggg agaaagaggc ccctgcagct
      181 ccttcatcat gaactggcac atgatcatct ctgggcttat tgtggtagtg cttaaagttg
      241 ttggaatgac cttatttcta ctttatttcc cacagatttt taacaaaagt aacgatggtt
      301 tcaccaccac caggagctat ggaacagtct cacagatttt tgggagcagt tccccaagtc
      361 ccaacggctt cattaccaca aggagctatg gaacagtctg ccccaaagac tgggaatttt
      421 atcaagcaag atgttttttc ttatccactt ctgaatcatc ttggaatgaa agcagggact
      481 tttgcaaagg aaaaggatcc acattggcaa ttgtcaacac gccagagaaa ctgaagtttc
      541 ttcaggacat aactgatgct gagaagtatt ttattggctt aatttaccat cgtgaagaga
      601 aaaggtggcg ttggatcaac aactctgtgt tcaatggcaa tgttaccaat cagaatcaga
      661 atttcaactg tgcgaccatt ggcctaacaa agacatttga tgctgcatca tgtgacatca
      721 gctaccgcag gatctgtgag aagaatgcca aatgatcaca gttccctgtg acaagaacta
      781 tacttgcaac tctttttgaa tccatacagg tcgtctggcc aatgattctt ttacttacct
      841 atctgtctac cagtagcggt ccttgcccat ttgggaaact gagcttcttt cttctgcact
      901 gggggactgg atgctagcca tctccaggag acaggatcag ttttacggaa acaactcagt
      961 tagtatagag atgaggtccg cttctgtagt actgagcatt tctgactgat caaaaaggcc
     1021 tagtctgttg acagggtttg ttttatttta gcctcagagt ataccatact actagggagt
     1081 aactgtagag tgagaaatta taaacattat ttagggatta ccatggtgga agagggataa
     1141 acataggtcc tgtgacttcg tctctgttct caagggaacc ccattcacat gcccctccta
     1201 actccacaag cgagggtagc agaggctctc ctcagtctga actaaggctt ggccttgggg
     1261 agggctccta gtgctgagct tggagcagca cggacagcag cattgtttat gggaatggag
     1321 agaggtctgg gcaggatagg aaccttcttg gagacccctt tgaagaaaac caggcagcca
     1381 agggagccaa acacactaga tttctgttct tcagcaaagc cctgaagaga cacttaagct
     1441 aaaaattccc ttgtcatatt tctgaaactc cattataaca tatgtaactc ctttgtaacc
     1501 aaaatttagg taagcaggct tcctttgctc tgaaggtttt gagtacctgg ctgtatttgt
     1561 tgagtatttt taaaattttg gatagtctct taggcaacaa taatcacaat atattcatcc
     1621 cttcagttct ggagaaagcc tgataccagg cacagcctac tgaccccaag gagcctggca
     1681 ctgattggca tcacattgat ctagaactgg tccagccgac gaagagtagg aaaagagaag
     1741 ggctgctcag ggaaacattg gctgggggca cggaataagc acatagtaaa aagggaacat
     1801 cagggtcaaa tggaaatcac ctgagacagg aaacagggag ttcatttggc cacactggaa
     1861 gaaaggcaag aaagaggaag acaagtcttg gagtaccctg gctgttctcc acactcacaa
     1921 gacatcagct atatactctg cttggtgcat aagaaagaga aaagagatgc cttttgtgtt
     1981 ttgagtaaga ataattaaac cataaggaag accatgtata aaactgatgg aaataatagt
     2041 caccaaagta cagcacatac cattttgtgt ctaataacaa tgtagcacag taatgactgt
     2101 acatgtcatt gtatgtatac caaacaagat tgttgtaaat catatttttt attacaacac
     2161 taagttctgc ttctgcattc ctaggtttca tcatttttgg ctccttagca tggccactta
     2221 caatttttta acatgagata acacatcagg tgtcagaact tgcttgaagg gaattaccag
     2281 aagtaatttg tgtttgagat ggggtggaaa ttggaattat attagtagcc ggtggagata
     2341 caagttctct gactgtgttg ggaaaggata agtgctaccg ttgagaaggg aagaaaggct
     2401 gagtctaggt ggagaaaaat atcaacagaa ctctagccaa aggcaagccc cagaactcag
     2461 acaacagaaa ggaaatccta atccttctgt tttgagaaga gagaactgta gttgcttcac
     2521 ttcctatttc atgacagaat aactgcaaac ttttaagatc aggaaatgta gacatctagt
     2581 gatttcttta gtagacagtt taatttcccc caagattagg agacacttct gtgcaggttc
     2641 taaaaggagc ccaatggcct ggggtgggag tggggagtag atagggaata tgtgggattt
     2701 ggtttaagtt catcattgga agagttcctg gatccttgca agcttagata aatgtgatct
     2761 ttattagata gcagtggcat gctttaaaaa aaaaaaaggc aatgaaaatt tagcaagcca
     2821 ctgaatttga gttttcactt tgtttctaat atgctgtgtg aatcagtaca gttttcttac
     2881 cctttcttgg tcttaatttc cttactgata aaatggggta gtaataccta tctcaaaaaa
     2941 ttattgcaca tattaaataa cattcctcta tgtatctcaa tggcattaga cattaggaga
     3001 agcattttgt ggaggatttg aagttgagat cttcatccaa gaagtagctt ttcaatttgc
     3061 tagaagctta atgtaggcaa gccacttcat ttttcagaac ttgtttactc atttataata
     3121 tgggaataaa aatttgtgca agtcagagaa gggtgcctta aaaatgttgt ggccaagcca
     3181 catgagatca aagacacact tttcatgacc tcaaatgtgg gcccagccta ggtcagccaa
     3241 cccccatcca acccttagac tcacgaacaa atccacctga gatcagcaga gccaccctag
     3301 atcagctgaa actctaagca caaaaataaa aacttatcac tgtataccac tggagttttc
     3361 tggttatctc tcgtatagca aaatctaact gatgcaatct ccatctggcc ttcatccttc
     3421 tccctttatt gtcctttcgt gtattgttca tccagcaacc aggatgatct tgttaaaaca
     3481 ttaaacagat tctgtcactc tt
//
