LOCUS       NM_016511               2685 bp    mRNA    linear   PRI 08-JUN-2024
DEFINITION  Homo sapiens C-type lectin domain family 1 member A (CLEC1A),
            transcript variant 1, mRNA.
ACCESSION   NM_016511
VERSION     NM_016511.4
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 2685)
  AUTHORS   Zhu,G., Lyu,L., Yang,H., Lee,J., Sun,J., Zhang,J., Xue,S., Yan,H.,
            Wang,L., Chen,X. and Che,C.
  TITLE     CLEC-1 Acts as a Negative Regulator of Dectin-1 Induced Host
            Inflammatory Response Signature in Aspergillus fumigatus Keratitis
  JOURNAL   Invest Ophthalmol Vis Sci 62 (6), 28 (2021)
   PUBMED   34043748
  REMARK    GeneRIF: CLEC-1 Acts as a Negative Regulator of Dectin-1 Induced
            Host Inflammatory Response Signature in Aspergillus fumigatus
            Keratitis.
REFERENCE   2  (bases 1 to 2685)
  AUTHORS   Takahashi,Y., Wake,H., Sakaguchi,M., Yoshii,Y., Teshigawara,K.,
            Wang,D. and Nishibori,M.
  TITLE     Histidine-Rich Glycoprotein Stimulates Human Neutrophil
            Phagocytosis and Prolongs Survival through CLEC1A
  JOURNAL   J Immunol 206 (4), 737-750 (2021)
   PUBMED   33452125
  REMARK    GeneRIF: Histidine-Rich Glycoprotein Stimulates Human Neutrophil
            Phagocytosis and Prolongs Survival through CLEC1A.
REFERENCE   3  (bases 1 to 2685)
  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 2685)
  AUTHORS   Sattler,S., Reiche,D., Sturtzel,C., Karas,I., Richter,S.,
            Kalb,M.L., Gregor,W. and Hofer,E.
  TITLE     The human C-type lectin-like receptor CLEC-1 is upregulated by
            TGF-beta and primarily localized in the endoplasmic membrane
            compartment
  JOURNAL   Scand J Immunol 75 (3), 282-292 (2012)
   PUBMED   22117783
  REMARK    GeneRIF: Expression of CLEC-1 mRNA was detected in myeloid cells as
            well as in endothelial cells. CLEC-1 protein displayed N-linked
            glycosylation and formed dimers.
REFERENCE   5  (bases 1 to 2685)
  AUTHORS   Kanazawa,N.
  TITLE     Dendritic cell immunoreceptors: C-type lectin receptors for
            pattern-recognition and signaling on antigen-presenting cells
  JOURNAL   J Dermatol Sci 45 (2), 77-86 (2007)
   PUBMED   17046204
  REMARK    Review article
REFERENCE   6  (bases 1 to 2685)
  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   7  (bases 1 to 2685)
  AUTHORS   Sobanov,Y., Bernreiter,A., Derdak,S., Mechtcheriakova,D.,
            Schweighofer,B., Duchler,M., Kalthoff,F. and Hofer,E.
  TITLE     A novel cluster of lectin-like receptor genes expressed in
            monocytic, dendritic and endothelial cells maps close to the NK
            receptor genes in the human NK gene complex
  JOURNAL   Eur J Immunol 31 (12), 3493-3503 (2001)
   PUBMED   11745369
REFERENCE   8  (bases 1 to 2685)
  AUTHORS   Colonna,M., Samaridis,J. and Angman,L.
  TITLE     Molecular characterization of two novel C-type lectin-like
            receptors, one of which is selectively expressed in human dendritic
            cells
  JOURNAL   Eur J Immunol 30 (2), 697-704 (2000)
   PUBMED   10671229
REFERENCE   9  (bases 1 to 2685)
  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 AK075114.1, AC024224.33 and
            BC067746.1.
            
            On May 17, 2019 this sequence version replaced NM_016511.3.
            
            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 signaling, glycoprotein turnover, and
            roles in inflammation and immune response. The encoded protein may
            play a role in regulating dendritic cell function. This gene is
            closely linked to other CTL/CTLD superfamily members on chromosome
            12p13 in the natural killer gene complex region. Alternative
            splicing results in multiple transcript variants. [provided by
            RefSeq, Jul 2014].
            
            Transcript Variant: This variant (1) encodes the longest isoform
            (a).
            
            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.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC067746.1, AK075114.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000315330.8/ ENSP00000326407.4
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-139               AK075114.1         1-139
            140-140             AC024224.33        89423-89423         c
            141-1756            AK075114.1         141-1756
            1757-1932           BC067746.1         1757-1932
            1933-2128           AC024224.33        60688-60883         c
            2129-2685           BC067746.1         2129-2685
FEATURES             Location/Qualifiers
     source          1..2685
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="12"
                     /map="12p13.2"
     gene            1..2685
                     /gene="CLEC1A"
                     /gene_synonym="CLEC-1; CLEC1"
                     /note="C-type lectin domain family 1 member A"
                     /db_xref="GeneID:51267"
                     /db_xref="HGNC:HGNC:24355"
                     /db_xref="MIM:606782"
     exon            1..178
                     /gene="CLEC1A"
                     /gene_synonym="CLEC-1; CLEC1"
                     /inference="alignment:Splign:2.1.0"
     CDS             64..906
                     /gene="CLEC1A"
                     /gene_synonym="CLEC-1; CLEC1"
                     /note="isoform a is encoded by transcript variant 1;
                     C-type lectin-like receptor-1"
                     /codon_start=1
                     /product="C-type lectin domain family 1 member A isoform
                     a"
                     /protein_id="NP_057595.2"
                     /db_xref="CCDS:CCDS8612.1"
                     /db_xref="GeneID:51267"
                     /db_xref="HGNC:HGNC:24355"
                     /db_xref="MIM:606782"
                     /translation="MQAKYSSTRDMLDDDGDTTMSLHSQGSATTRHPEPRRTEHRAPS
                     STWRPVALTLLTLCLVLLIGLAALGLLFFQYYQLSNTGQDTISQMEERLGNTSQELQS
                     LQVQNIKLAGSLQHVAEKLCRELYNKAGAHRCSPCTEQWKWHGDNCYQFYKDSKSWED
                     CKYFCLSENSTMLKINKQEDLEFAASQSYSEFFYSYWTGLLRPDSGKAWLWMDGTPFT
                     SELFHIIIDVTSPRSRDCVAILNGMIFSKDCKELKRCVCERRAGMVKPESLHVPPETL
                     GEGD"
     exon            179..277
                     /gene="CLEC1A"
                     /gene_synonym="CLEC-1; CLEC1"
                     /inference="alignment:Splign:2.1.0"
     exon            278..454
                     /gene="CLEC1A"
                     /gene_synonym="CLEC-1; CLEC1"
                     /inference="alignment:Splign:2.1.0"
     exon            455..606
                     /gene="CLEC1A"
                     /gene_synonym="CLEC-1; CLEC1"
                     /inference="alignment:Splign:2.1.0"
     exon            607..725
                     /gene="CLEC1A"
                     /gene_synonym="CLEC-1; CLEC1"
                     /inference="alignment:Splign:2.1.0"
     exon            726..2685
                     /gene="CLEC1A"
                     /gene_synonym="CLEC-1; CLEC1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1738..1743
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CLEC1A"
                     /gene_synonym="CLEC-1; CLEC1"
                     /note="hexamer: AATAAA"
     polyA_site      1758
                     /gene="CLEC1A"
                     /gene_synonym="CLEC-1; CLEC1"
                     /note="major polyA site"
     regulatory      1912..1917
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CLEC1A"
                     /gene_synonym="CLEC-1; CLEC1"
                     /note="hexamer: AATAAG"
     polyA_site      1950
                     /gene="CLEC1A"
                     /gene_synonym="CLEC-1; CLEC1"
ORIGIN      
        1 acagtagccc ggcggcccag ggcaatccga ccacatttca ctctcaccgc tgtaggaatc
       61 cagatgcagg ccaagtacag cagcacgagg gacatgctgg atgatgatgg ggacaccacc
      121 atgagcctgc attctcaagg ctctgccaca actcggcatc cagagccccg gcgcacagag
      181 cacagggctc cctcttcaac gtggcgacca gtggccctga ccctgctgac tttgtgcttg
      241 gtgctgctga tagggctggc agccctgggg cttttgtttt ttcagtacta ccagctctcc
      301 aatactggtc aagacaccat ttctcaaatg gaagaaagat taggaaatac gtcccaagag
      361 ttgcaatctc ttcaagtcca gaatataaag cttgcaggaa gtctgcagca tgtggctgaa
      421 aaactctgtc gtgagctgta taacaaagct ggagcacaca ggtgcagccc ttgtacagaa
      481 caatggaaat ggcatggaga caattgctac cagttctata aagacagcaa aagttgggag
      541 gactgtaaat atttctgcct tagtgaaaac tctaccatgc tgaagataaa caaacaagaa
      601 gacctggaat ttgccgcgtc tcagagctac tctgagtttt tctactctta ttggacaggg
      661 cttttgcgcc ctgacagtgg caaggcctgg ctgtggatgg atggaacccc tttcacttct
      721 gaactgttcc atattataat agatgtcacc agcccaagaa gcagagactg tgtggccatc
      781 cttaatggga tgatcttctc aaaggactgc aaagaattga agcgttgtgt ctgtgagaga
      841 agggcaggaa tggtgaagcc agagagcctc catgtccccc ctgaaacatt aggcgaaggt
      901 gactgattcg ccctctgcaa ctacaaatag cagagtgagc caggcggtgc caaagcaagg
      961 gctagttgag acattgggaa atggaacata atcaggaaag actatctctc tgactagtac
     1021 aaaatgggtt ctcgtgtttc ctgttcagga tcaccagcat ttctgagctt gggtttatgc
     1081 acgtatttaa cagtcacaag aagtcttatt tacatgccac caaccaacct cagaaaccca
     1141 taatgtcatc tgccttcttg gcttagagat aacttttagc tctctttctt ctcaatgtct
     1201 aatatcacct ccctgttttc atgtcttcct tacacttggt ggaataagaa actttttgaa
     1261 gtagaggaaa tacattgagg taacatcctt ttctctgaca gtcaagtagt ccatcagaaa
     1321 ttggcagtca cttcccagat tgtaccagca aatacacaag gaattctttt tgtttgtttc
     1381 agttcatact agtcccttcc caatccatca gtaaagaccc catctgcctt gtccatgccg
     1441 tttcccaaca gggatgtcac ttgatatgag aatctcaaat ctcaatgcct tataagcatt
     1501 ccttcctgtg tccattaaga ctctgataat tgtctcccct ccataggaat ttctcccagg
     1561 aaagaaatat atccccatct ccgtttcata tcagaactac cgtccccgat attcccttca
     1621 gagagattaa agaccagaaa aaagtgagcc tcttcatctg cacctgtaat agtttcagtt
     1681 cctattttct tccattgacc catatttata cctttcaggt actgaagatt taataataat
     1741 aaatgtaaat actgtgaagt gtgtgtgatt ttacaatgga cttatggttg gtgggaaaat
     1801 tcagcatgga aatgcttttc aaaatatgat agcggtcatt attttgattg tgccttactg
     1861 aaagtttttg gggaatttac aagagtactg attacatgat tatctggaga aaataagatg
     1921 tctttgaaat acgtgttggc ttcaagaaaa cagttttaac gttttcctaa aatgaaatct
     1981 tttgaggtga gcttatggca tcaacacatg gttgatgagg aagctgagtt gcattagtgc
     2041 acatgatttc cagtcaggtc atgggaaatg aacagagaca gtgacatctt tgtagctgct
     2101 cctttgtgag gcacttcttt cttgagacga ctccatgcac aaatataaca gggatcattg
     2161 ggaatgacac catcacagcc accaagttta ttggtttact gataaatcaa ttttgagggt
     2221 tttatgctag aaaagataac attataaatc tttgtttttc aacagtggaa actgaggtgc
     2281 ttcagttttg tttttcataa acatctatct catggtaaaa tgacgtatag tagcaatcat
     2341 atgatagaaa gaacacattg gtgctcattt tcataaactt cattttgtta gattgtcact
     2401 tagcaaagac tattgcggat tcttccttga gaactttcct ttcaattttc tgttgatttc
     2461 cttaaaattt tcttcagggt cgagcaagtt ctgttgatat attgtgtcat gcaaagaaaa
     2521 ctgtatttgt ggttagaaaa tgaagatttt agacctctta ttctgattta cttattaggc
     2581 aagtcacttt acttcatgaa acctatttca ctgcatatga agtagaaata attataattt
     2641 cctcataatg ttactgttag ctgaaataaa gtaaatgtga aatca
//
