LOCUS       NM_001170333            1473 bp    mRNA    linear   ROD 26-JUN-2024
DEFINITION  Mus musculus C-type lectin domain family 4, member a2 (Clec4a2),
            transcript variant 1, mRNA.
ACCESSION   NM_001170333
VERSION     NM_001170333.2
KEYWORDS    RefSeq.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 1473)
  AUTHORS   Trimaglio,G., Sneperger,T., Raymond,B.B.A., Gilles,N., Naser,E.,
            Locard-Paulet,M., Ijsselsteijn,M.E., Brouwer,T.P., Ecalard,R.,
            Roelands,J., Matsumoto,N., Colom,A., Habch,M., de Miranda,N.F.C.C.,
            Vergnolle,N., Devaud,C., Neyrolles,O. and Rombouts,Y.
  TITLE     The C-type lectin DCIR contributes to the immune response and
            pathogenesis of colorectal cancer
  JOURNAL   Sci Rep 14 (1), 7199 (2024)
   PUBMED   38532110
  REMARK    GeneRIF: The C-type lectin DCIR contributes to the immune response
            and pathogenesis of colorectal cancer.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1473)
  AUTHORS   Kaifu,T., Maruhashi,T., Chung,S.H., Shimizu,K., Nakamura,A. and
            Iwakura,Y.
  TITLE     DCIR suppresses osteoclastic proliferation and resorption by
            downregulating M-CSF and RANKL signaling
  JOURNAL   Front Immunol 14, 1159058 (2023)
   PUBMED   37266426
  REMARK    GeneRIF: DCIR suppresses osteoclastic proliferation and resorption
            by downregulating M-CSF and RANKL signaling.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1473)
  AUTHORS   Seeling,M., Pohnl,M., Kara,S., Horstmann,N., Riemer,C., Wohner,M.,
            Liang,C., Bruckner,C., Eiring,P., Werner,A., Biburger,M.,
            Altmann,L., Schneider,M., Amon,L., Lehmann,C.H.K., Lee,S., Kunz,M.,
            Dudziak,D., Schett,G., Bauerle,T., Lux,A., Tuckermann,J.,
            Vogtle,T., Nieswandt,B., Sauer,M., Bockmann,R.A. and Nimmerjahn,F.
  TITLE     Immunoglobulin G-dependent inhibition of inflammatory bone
            remodeling requires pattern recognition receptor Dectin-1
  JOURNAL   Immunity 56 (5), 1046-1063 (2023)
   PUBMED   36948194
REFERENCE   4  (bases 1 to 1473)
  AUTHORS   Sun,H., Tang,C., Chung,S.H., Ye,X.Q., Makusheva,Y., Han,W.,
            Kubo,M., Shichino,S., Ueha,S., Matsushima,K., Ikeo,K., Asano,M. and
            Iwakura,Y.
  TITLE     Blocking DCIR mitigates colitis and prevents colorectal tumors by
            enhancing the GM-CSF-STAT5 pathway
  JOURNAL   Cell Rep 40 (5), 111158 (2022)
   PUBMED   35926458
  REMARK    GeneRIF: Blocking DCIR mitigates colitis and prevents colorectal
            tumors by enhancing the GM-CSF-STAT5 pathway.
REFERENCE   5  (bases 1 to 1473)
  AUTHORS   Luo,X., Chen,J., Yang,H., Hu,X., Alphonse,M.P., Shen,Y.,
            Kawakami,Y., Zhou,X., Tu,W., Kawakami,T., Wan,M., Archer,N.K.,
            Wang,H. and Gao,P.
  TITLE     Dendritic cell immunoreceptor drives atopic dermatitis by
            modulating oxidized CaMKII-involved mast cell activation
  JOURNAL   JCI Insight 7 (5), e152559 (2022)
   PUBMED   35113811
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1473)
  AUTHORS   Orr,S.L., Le,D., Long,J.M., Sobieszczuk,P., Ma,B., Tian,H.,
            Fang,X., Paulson,J.C., Marth,J.D. and Varki,N.
  TITLE     A phenotype survey of 36 mutant mouse strains with gene-targeted
            defects in glycosyltransferases or glycan-binding proteins
  JOURNAL   Glycobiology 23 (3), 363-380 (2013)
   PUBMED   23118208
REFERENCE   7  (bases 1 to 1473)
  AUTHORS   Fujikado,N., Saijo,S., Yonezawa,T., Shimamori,K., Ishii,A.,
            Sugai,S., Kotaki,H., Sudo,K., Nose,M. and Iwakura,Y.
  TITLE     Dcir deficiency causes development of autoimmune diseases in mice
            due to excess expansion of dendritic cells
  JOURNAL   Nat Med 14 (2), 176-180 (2008)
   PUBMED   18204462
  REMARK    GeneRIF: These observations indicate that Dcir is a negative
            regulator of dendritic cell expansion and has a crucial role in
            maintaining the homeostasis of the immune system.
REFERENCE   8  (bases 1 to 1473)
  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   9  (bases 1 to 1473)
  AUTHORS   Kanazawa,N., Okazaki,T., Nishimura,H., Tashiro,K., Inaba,K. and
            Miyachi,Y.
  TITLE     DCIR acts as an inhibitory receptor depending on its immunoreceptor
            tyrosine-based inhibitory motif
  JOURNAL   J Invest Dermatol 118 (2), 261-266 (2002)
   PUBMED   11841542
REFERENCE   10 (bases 1 to 1473)
  AUTHORS   Bates,E.E., Fournier,N., Garcia,E., Valladeau,J., Durand,I.,
            Pin,J.J., Zurawski,S.M., Patel,S., Abrams,J.S., Lebecque,S.,
            Garrone,P. and Saeland,S.
  TITLE     APCs express DCIR, a novel C-type lectin surface receptor
            containing an immunoreceptor tyrosine-based inhibitory motif
  JOURNAL   J Immunol 163 (4), 1973-1983 (1999)
   PUBMED   10438934
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC164111.4.
            
            On Aug 10, 2022 this sequence version replaced NM_001170333.1.
            
            Transcript Variant: This variant (1) represents the longest
            transcript and encodes the longer isoform (a).
            
            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 :: BC006623.1, SRR13422601.2160790.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849380, SAMN00849381
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-341               AC164111.4         50338-50678
            342-458             AC164111.4         51979-52095
            459-560             AC164111.4         54961-55062
            561-632             AC164111.4         66066-66137
            633-790             AC164111.4         66260-66417
            791-903             AC164111.4         67665-67777
            904-1473            AC164111.4         69372-69941
FEATURES             Location/Qualifiers
     source          1..1473
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="6"
                     /map="6 58.18 cM"
     gene            1..1473
                     /gene="Clec4a2"
                     /gene_synonym="Clec4a; Clecsf6; DCIR; Dcir1"
                     /note="C-type lectin domain family 4, member a2"
                     /db_xref="GeneID:26888"
                     /db_xref="MGI:MGI:1349412"
     exon            1..341
                     /gene="Clec4a2"
                     /gene_synonym="Clec4a; Clecsf6; DCIR; Dcir1"
                     /inference="alignment:Splign:2.1.0"
     CDS             260..1048
                     /gene="Clec4a2"
                     /gene_synonym="Clec4a; Clecsf6; DCIR; Dcir1"
                     /note="isoform a is encoded by transcript variant 1;
                     C-type (calcium dependent, carbohydrate recognition
                     domain) lectin, superfamily member 6; C-type lectin domain
                     family 4 member A; C-type lectin superfamily member 6;
                     dendritic cell immunoreceptor"
                     /codon_start=1
                     /product="C-type lectin domain family 4 member A isoform
                     a"
                     /protein_id="NP_001163804.1"
                     /db_xref="CCDS:CCDS51894.1"
                     /db_xref="GeneID:26888"
                     /db_xref="MGI:MGI:1349412"
                     /translation="MASEITYAEVKFKNESNSLHTYSESPAAPREKPIRDLRKPGSPS
                     LLLTSLMLLLLLLAITFLVAFIIYFQKYSQLLEEKKAAKNIMHNELNCTKSVSPMEAP
                     PIGQRALTLESIEIDLGILAPEDKVWSCCPKDWRLFGSHCYLVPTVSSSASWNKSEEN
                     CSRMGAHLVVIQSQEEQDFITGILDTHAAYFIGLWDTGHRQWQWVDQTPYEESITFWH
                     NGEPSSGNEKCATIIYRWKTGWGWNDISCSLKQKSVCQMKKINL"
     exon            342..458
                     /gene="Clec4a2"
                     /gene_synonym="Clec4a; Clecsf6; DCIR; Dcir1"
                     /inference="alignment:Splign:2.1.0"
     exon            459..560
                     /gene="Clec4a2"
                     /gene_synonym="Clec4a; Clecsf6; DCIR; Dcir1"
                     /inference="alignment:Splign:2.1.0"
     exon            561..632
                     /gene="Clec4a2"
                     /gene_synonym="Clec4a; Clecsf6; DCIR; Dcir1"
                     /inference="alignment:Splign:2.1.0"
     exon            633..790
                     /gene="Clec4a2"
                     /gene_synonym="Clec4a; Clecsf6; DCIR; Dcir1"
                     /inference="alignment:Splign:2.1.0"
     exon            791..903
                     /gene="Clec4a2"
                     /gene_synonym="Clec4a; Clecsf6; DCIR; Dcir1"
                     /inference="alignment:Splign:2.1.0"
     exon            904..1473
                     /gene="Clec4a2"
                     /gene_synonym="Clec4a; Clecsf6; DCIR; Dcir1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1036..1041
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Clec4a2"
                     /gene_synonym="Clec4a; Clecsf6; DCIR; Dcir1"
                     /note="hexamer: AATAAA"
     polyA_site      1056
                     /gene="Clec4a2"
                     /gene_synonym="Clec4a; Clecsf6; DCIR; Dcir1"
                     /note="major polyA site"
     regulatory      1380..1385
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Clec4a2"
                     /gene_synonym="Clec4a; Clecsf6; DCIR; Dcir1"
                     /note="hexamer: ATTAAA"
     polyA_site      1407
                     /gene="Clec4a2"
                     /gene_synonym="Clec4a; Clecsf6; DCIR; Dcir1"
     regulatory      1454..1459
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Clec4a2"
                     /gene_synonym="Clec4a; Clecsf6; DCIR; Dcir1"
                     /note="hexamer: ATTAAA"
     polyA_site      1473
                     /gene="Clec4a2"
                     /gene_synonym="Clec4a; Clecsf6; DCIR; Dcir1"
ORIGIN      
        1 acttgcatat cttgctgagt gggtttgagg gctacaattc ttattttctt atgttaagag
       61 gttgcatttc ccttatctcg ccctggtgat tctatgctgt ggtttcttgt tctcatctcg
      121 tttatcctag tgagacatgt ctcttctttc atacaactgt gcaatatgac aacttatcac
      181 agtgattggt tctcatatac tatagagcct tagagaagga acaaggctct cttctgacgg
      241 aggaagattt tttcttgata tggcttcaga aatcacttat gcagaagtga agttcaagaa
      301 tgaatccaac tccttgcaca cctactcaga atctcctgca gctcccagag agaaacctat
      361 ccgtgatcta agaaagcctg gttccccctc actgcttctt acatccctga tgctacttct
      421 cctgctgctg gcaatcacat tcttagttgc ttttatcatt tattttcaaa agtactctca
      481 acttcttgaa gaaaaaaaag ctgcaaaaaa tataatgcac aatgaattga actgcacaaa
      541 aagtgtttca cccatggaag caccccccat tggacaaagg gccctgacat tagagtcaat
      601 tgagatagac ttgggtatct tggcacctga ggacaaagtc tggagctgtt gcccaaagga
      661 ttggaggcta tttggttccc actgctactt ggttcccaca gtttcttcat cagcatcttg
      721 gaacaagagt gaggagaact gctcccgcat gggtgctcat ctagtggtga tccaaagcca
      781 ggaagagcag gatttcatca ctgggatctt ggacactcat gctgcttatt ttatagggtt
      841 gtgggataca ggccatcggc aatggcaatg ggttgatcag acaccatatg aagaaagtat
      901 cacattctgg cacaatggtg agcccagcag tggcaatgaa aaatgtgcta caataattta
      961 ccgttggaag actggatggg gctggaacga tatctcttgc agtcttaaac agaagtcagt
     1021 ttgtcagatg aagaaaataa acttatgaat cactcattct tcatgggcat tcgattcatt
     1081 gttatccaac cattacacag acacctggga aattctacag gttcacagaa tttaagtggg
     1141 cagcaaatgg ttatgcatac actggcccac atatatcctt gtgcatttac ccacctactc
     1201 tgtcataaaa tgaactttca ttgagaattt tctatatacc acagagtata cagagtccct
     1261 tatggacaca catggaactt tttgccatct tgtttactca tgccattgta tgataggttc
     1321 tcttgaccta tctgtttctg tttctctgtt gtttttttaa tgtctttgga tttattgaca
     1381 ttaaattgag aagtaaaatt ataaatattt aagtgtctgg attgatacac acagatatgt
     1441 actatgaaat ataattaaat atttactgtc aaa
//
