LOCUS       NM_014358               2101 bp    mRNA    linear   PRI 29-OCT-2024
DEFINITION  Homo sapiens C-type lectin domain family 4 member E (CLEC4E),
            transcript variant 1, mRNA.
ACCESSION   NM_014358
VERSION     NM_014358.4
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 2101)
  AUTHORS   Noriega,M., Corey,R.A., Haanappel,E., Demange,P., Czaplicki,G.,
            Atkinson,R.A. and Chavent,M.
  TITLE     Coarse-Graining the Recognition of a Glycolipid by the C-Type
            Lectin Mincle Receptor
  JOURNAL   J Phys Chem B 128 (41), 9935-9946 (2024)
   PUBMED   39368102
  REMARK    GeneRIF: Coarse-Graining the Recognition of a Glycolipid by the
            C-Type Lectin Mincle Receptor.
REFERENCE   2  (bases 1 to 2101)
  AUTHORS   Zhou,W., Wu,L., Song,J., Jiao,L., Zhou,Y., Zhou,J., Wang,N.,
            Liu,T., Zhao,Z., Bai,H., Wu,T. and Ying,B.
  TITLE     A case-control study on correlation between the single nucleotide
            polymorphism of CLEC4E and the susceptibility to tuberculosis among
            Han people in Western China
  JOURNAL   BMC Infect Dis 21 (1), 788 (2021)
   PUBMED   34376176
  REMARK    GeneRIF: A case-control study on correlation between the single
            nucleotide polymorphism of CLEC4E and the susceptibility to
            tuberculosis among Han people in Western China.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2101)
  AUTHORS   Olvany,J.M., Sausville,L.N., White,M.J., Tacconelli,A., Tavera,G.,
            Sobota,R.S., Ciccacci,C., Bohlbro,A.S., Wejse,C., Williams,S.M. and
            Sirugo,G.
  TITLE     CLEC4E (Mincle) genetic variation associates with pulmonary
            tuberculosis in Guinea-Bissau (West Africa)
  JOURNAL   Infect Genet Evol 85, 104560 (2020)
   PUBMED   32971250
  REMARK    GeneRIF: CLEC4E (Mincle) genetic variation associates with
            pulmonary tuberculosis in Guinea-Bissau (West Africa).
REFERENCE   4  (bases 1 to 2101)
  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   5  (bases 1 to 2101)
  AUTHORS   Miyake,Y. and Yamasaki,S.
  TITLE     Immune Recognition of Pathogen-Derived Glycolipids Through Mincle
  JOURNAL   Adv Exp Med Biol 1204, 31-56 (2020)
   PUBMED   32152942
  REMARK    GeneRIF: overview of the accumulated knowledge of the multi-task
            danger receptor Mincle from its discovery to the latest findings
            Review article
REFERENCE   6  (bases 1 to 2101)
  AUTHORS   Crozat,K., Vivier,E. and Dalod,M.
  TITLE     Crosstalk between components of the innate immune system: promoting
            anti-microbial defenses and avoiding immunopathologies
  JOURNAL   Immunol Rev 227 (1), 129-149 (2009)
   PUBMED   19120481
  REMARK    GeneRIF: important for the initiation of an innate immune response
            to Candida albicans
            Review article
REFERENCE   7  (bases 1 to 2101)
  AUTHORS   Bugarcic,A., Hitchens,K., Beckhouse,A.G., Wells,C.A., Ashman,R.B.
            and Blanchard,H.
  TITLE     Human and mouse macrophage-inducible C-type lectin (Mincle) bind
            Candida albicans
  JOURNAL   Glycobiology 18 (9), 679-685 (2008)
   PUBMED   18509109
  REMARK    GeneRIF: Several functional states mediating the interaction of
            Mincle and yeast at the surface of the macrophage.
REFERENCE   8  (bases 1 to 2101)
  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 2101)
  AUTHORS   Matsumoto,M., Tanaka,T., Kaisho,T., Sanjo,H., Copeland,N.G.,
            Gilbert,D.J., Jenkins,N.A. and Akira,S.
  TITLE     A novel LPS-inducible C-type lectin is a transcriptional target of
            NF-IL6 in macrophages
  JOURNAL   J Immunol 163 (9), 5039-5048 (1999)
   PUBMED   10528209
REFERENCE   10 (bases 1 to 2101)
  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 AK312671.1, DA669951.1,
            AB024718.1 and AC092746.9.
            
            On May 17, 2019 this sequence version replaced NM_014358.3.
            
            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 signalling, glycoprotein turnover, and
            roles in inflammation and immune response. The encoded type II
            transmembrane protein is a downstream target of CCAAT/enhancer
            binding protein (C/EBP), beta (CEBPB) and may play a role in
            inflammation. Alternative splice variants have been described but
            their full-length sequence has not been determined. 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 :: AB024718.1, SRR3476690.807130.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000299663.8/ ENSP00000299663.3
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-768               AK312671.1         59-826
            769-1036            DA669951.1         279-546
            1037-1839           AB024718.1         1079-1881
            1840-1876           AC092746.9         45142-45178
            1877-2101           AB024718.1         1919-2143
FEATURES             Location/Qualifiers
     source          1..2101
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="12"
                     /map="12p13.31"
     gene            1..2101
                     /gene="CLEC4E"
                     /gene_synonym="CLECSF9; MINCLE"
                     /note="C-type lectin domain family 4 member E"
                     /db_xref="GeneID:26253"
                     /db_xref="HGNC:HGNC:14555"
                     /db_xref="MIM:609962"
     exon            1..145
                     /gene="CLEC4E"
                     /gene_synonym="CLECSF9; MINCLE"
                     /inference="alignment:Splign:2.1.0"
     CDS             109..768
                     /gene="CLEC4E"
                     /gene_synonym="CLECSF9; MINCLE"
                     /note="isoform 1 is encoded by transcript variant 1;
                     C-type (calcium dependent, carbohydrate-recognition
                     domain) lectin, superfamily member 9; macrophage-inducible
                     C-type lectin; C-type lectin superfamily member 9"
                     /codon_start=1
                     /product="C-type lectin domain family 4 member E isoform
                     1"
                     /protein_id="NP_055173.1"
                     /db_xref="CCDS:CCDS8594.1"
                     /db_xref="GeneID:26253"
                     /db_xref="HGNC:HGNC:14555"
                     /db_xref="MIM:609962"
                     /translation="MNSSKSSETQCTERGCFSSQMFLWTVAGIPILFLSACFITRCVV
                     TFRIFQTCDEKKFQLPENFTELSCYNYGSGSVKNCCPLNWEYFQSSCYFFSTDTISWA
                     LSLKNCSAMGAHLVVINSQEEQEFLSYKKPKMREFFIGLSDQVVEGQWQWVDGTPLTK
                     SLSFWDVGEPNNIATLEDCATMRDSSNPRQNWNDVTCFLNYFRICEMVGINPLNKGKS
                     L"
     exon            146..238
                     /gene="CLEC4E"
                     /gene_synonym="CLECSF9; MINCLE"
                     /inference="alignment:Splign:2.1.0"
     exon            239..328
                     /gene="CLEC4E"
                     /gene_synonym="CLECSF9; MINCLE"
                     /inference="alignment:Splign:2.1.0"
     exon            329..480
                     /gene="CLEC4E"
                     /gene_synonym="CLECSF9; MINCLE"
                     /inference="alignment:Splign:2.1.0"
     exon            481..596
                     /gene="CLEC4E"
                     /gene_synonym="CLECSF9; MINCLE"
                     /inference="alignment:Splign:2.1.0"
     exon            597..2101
                     /gene="CLEC4E"
                     /gene_synonym="CLECSF9; MINCLE"
                     /inference="alignment:Splign:2.1.0"
     regulatory      896..901
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CLEC4E"
                     /gene_synonym="CLECSF9; MINCLE"
                     /note="hexamer: AATAAA"
     regulatory      902..907
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CLEC4E"
                     /gene_synonym="CLECSF9; MINCLE"
                     /note="hexamer: AATAAG"
     polyA_site      917
                     /gene="CLEC4E"
                     /gene_synonym="CLECSF9; MINCLE"
     polyA_site      929
                     /gene="CLEC4E"
                     /gene_synonym="CLECSF9; MINCLE"
                     /note="major polyA site"
ORIGIN      
        1 attcattctc cctgaatctt accaacaaaa cactcctgag gagaaagaaa gagagggagg
       61 gagagaaaaa gagagagaga gaaacaaaaa accaaagaga gagaaaaaat gaattcatct
      121 aaatcatctg aaacacaatg cacagagaga ggatgcttct cttcccaaat gttcttatgg
      181 actgttgctg ggatccccat cctatttctc agtgcctgtt tcatcaccag atgtgttgtg
      241 acatttcgca tctttcaaac ctgtgatgag aaaaagtttc agctacctga gaatttcaca
      301 gagctctcct gctacaatta tggatcaggt tcagtcaaga attgttgtcc attgaactgg
      361 gaatattttc aatccagctg ctacttcttt tctactgaca ccatttcctg ggcgttaagt
      421 ttaaagaact gctcagccat gggggctcac ctggtggtta tcaactcaca ggaggagcag
      481 gaattccttt cctacaagaa acctaaaatg agagagtttt ttattggact gtcagaccag
      541 gttgtcgagg gtcagtggca atgggtggac ggcacacctt tgacaaagtc tctgagcttc
      601 tgggatgtag gggagcccaa caacatagct accctggagg actgtgccac catgagagac
      661 tcttcaaacc caaggcaaaa ttggaatgat gtaacctgtt tcctcaatta ttttcggatt
      721 tgtgaaatgg taggaataaa tcctttgaac aaaggaaaat ctctttaaga acagaaggca
      781 caactcaaat gtgtaaagaa ggaagagcaa gaacatggcc acacccaccg ccccacacga
      841 gaaatttgtg cgctgaactt caaaggactt cataagtatt tgttactctg atataaataa
      901 aaataagtag ttttaaatgt tataattcat gttactggct gaagtgcatt ttctctctac
      961 gttagtctca ggtcctcttc ccagaattta caaagcaatt cactaccttt tgctacattt
     1021 gcctcatttt ttagtgttcg tatgaaagta cagggacacg gagccaagac agagtctagc
     1081 aaagaagggg attttggaag gtgccttcca aaaatctcct gaatccgggc tctgtagcag
     1141 gtcctcttct ttctagcttc tgacaagtct gtcttctctt cttggtttca taccgttctt
     1201 atctcctgcc caagcatata tcgtctcttt actcccctgt ataatgagta agaagcttct
     1261 tcaagtcatg aaacttattc ctgctcagaa taccggtgtg gcctttctgg ctacaggcct
     1321 ccactgcacc ttcttaggga agggcatgcc agccatcagc tccaaacagg ctgtaaccaa
     1381 gtccacccat ccctggggct tcctttgctc tgccttattt tcaattgact gaatggatct
     1441 caccagattt tgtatctatt gctcagctag gacccgagtc caatagtcaa tttattctaa
     1501 gcgaacattc atctccacac tttcctgtct caagcccatc cattatttct taacttttat
     1561 tttagctttc gggggtacat gttaaaggct ttttatatag gtaaactcat gtcgtggagg
     1621 tttgttgtac agattatttc atcacccagg tattaagccc agtgcctaat attgtttttt
     1681 tcggctcctc tccctcctcc taccttccgc cctcaagtag actccagtgt ctgttattcc
     1741 cttctttgtg tttatgaatt ctcatcattt agctcccact tataagtgag gacatgcagt
     1801 atttggtttt ctgttcccat gtttgctaag gataatggtc tccagttcta ccgatgttcc
     1861 cacaaaagac ataatcttct tttttaaggc tgcttagtat tccatggtat ctatgtatca
     1921 cattttctct atccaatcta ttgttgactc acatttagat tgattccatg tttttgctat
     1981 tgtgaatagt gctgcaatga acattcgtgt gcatgtgtct ttatggtaga aagatttata
     2041 tttctctgag tatgtatcca gtaatagccc attcatttat tgcataaaat tctaccaata
     2101 c
//
