LOCUS       NM_001003707            1295 bp    mRNA    linear   ROD 31-MAR-2024
DEFINITION  Rattus norvegicus C-type lectin domain family 4, member D (Clec4d),
            mRNA.
ACCESSION   NM_001003707 XM_342753
VERSION     NM_001003707.2
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 1295)
  AUTHORS   N'diaye,M., Brauner,S., Flytzani,S., Kular,L., Warnecke,A.,
            Adzemovic,M.Z., Piket,E., Min,J.H., Edwards,W., Mela,F., Choi,H.Y.,
            Magg,V., James,T., Linden,M., Reichardt,H.M., Daws,M.R., van
            Horssen,J., Kockum,I., Harris,R.A., Olsson,T.,
            Guerreiro-Cacais,A.O. and Jagodic,M.
  TITLE     C-type lectin receptors Mcl and Mincle control development of
            multiple sclerosis-like neuroinflammation
  JOURNAL   J Clin Invest 130 (2), 838-852 (2020)
   PUBMED   31725411
  REMARK    GeneRIF: C-type lectin receptors Mcl and Mincle control development
            of multiple sclerosis-like neuroinflammation.
REFERENCE   2  (bases 1 to 1295)
  AUTHORS   Lobato-Pascual,A., Saether,P.C., Fossum,S., Dissen,E. and Daws,M.R.
  TITLE     Mincle, the receptor for mycobacterial cord factor, forms a
            functional receptor complex with MCL and FcepsilonRI-gamma
  JOURNAL   Eur J Immunol 43 (12), 3167-3174 (2013)
   PUBMED   23921530
  REMARK    GeneRIF: The results presented in this paper suggest that the
            Mincle/MCL/FcepsilonRI-gamma complex is the functionally optimal
            form for these C-type lectin receptors on the surface of myeloid
            cells.
REFERENCE   3  (bases 1 to 1295)
  AUTHORS   Miyake,Y., Toyonaga,K., Mori,D., Kakuta,S., Hoshino,Y., Oyamada,A.,
            Yamada,H., Ono,K., Suyama,M., Iwakura,Y., Yoshikai,Y. and
            Yamasaki,S.
  TITLE     C-type lectin MCL is an FcRgamma-coupled receptor that mediates the
            adjuvanticity of mycobacterial cord factor
  JOURNAL   Immunity 38 (5), 1050-1062 (2013)
   PUBMED   23602766
REFERENCE   4  (bases 1 to 1295)
  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   5  (bases 1 to 1295)
  AUTHORS   Arce,I., Martinez-Munoz,L., Roda-Navarro,P. and Fernandez-Ruiz,E.
  TITLE     The human C-type lectin CLECSF8 is a novel monocyte/macrophage
            endocytic receptor
  JOURNAL   Eur J Immunol 34 (1), 210-220 (2004)
   PUBMED   14971047
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000004.1.
            
            On Apr 11, 2023 this sequence version replaced NM_001003707.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AY494065.1, AY339882.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN06621351, SAMN06680412
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-209               JAXUCZ010000004.1  158275343-158275551
            210-302             JAXUCZ010000004.1  158278022-158278114
            303-407             JAXUCZ010000004.1  158279947-158280051
            408-559             JAXUCZ010000004.1  158281016-158281167
            560-675             JAXUCZ010000004.1  158282542-158282657
            676-1295            JAXUCZ010000004.1  158284357-158284976
FEATURES             Location/Qualifiers
     source          1..1295
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="4"
                     /map="4q42"
     gene            1..1295
                     /gene="Clec4d"
                     /gene_synonym="Clecsf8; Mcl"
                     /note="C-type lectin domain family 4, member D"
                     /db_xref="GeneID:362432"
                     /db_xref="RGD:1303339"
     exon            1..209
                     /gene="Clec4d"
                     /gene_synonym="Clecsf8; Mcl"
                     /inference="alignment:Splign:2.1.0"
     CDS             182..838
                     /gene="Clec4d"
                     /gene_synonym="Clecsf8; Mcl"
                     /note="C-type (calcium dependent, carbohydrate recognition
                     domain) lectin, superfamily member 8; macrophage C-type
                     lectin; C-type lectin superfamily member 8"
                     /codon_start=1
                     /product="C-type lectin domain family 4 member D"
                     /protein_id="NP_001003707.2"
                     /db_xref="GeneID:362432"
                     /db_xref="RGD:1303339"
                     /translation="MWLEESQMKSKGALHPQRIPWVCAVVSISFLSACFISTCLVTHY
                     FLLWKRGSALKFSDYHTRLTCILEEPQPGATGGTWTCCPVSWRAFQSNCYFPLNDNQT
                     WHESERNCSGMSSHLVTINTEAEQDFVTQLLDEQFSYFLGLSYEKVEGQWQWVDKTPF
                     NPNVVFWKVGEPKDYMEEDCVVLVYDQDKWVWNDFPCHFEMGRICKLPGATFDWNPSK
                     "
     exon            210..302
                     /gene="Clec4d"
                     /gene_synonym="Clecsf8; Mcl"
                     /inference="alignment:Splign:2.1.0"
     exon            303..407
                     /gene="Clec4d"
                     /gene_synonym="Clecsf8; Mcl"
                     /inference="alignment:Splign:2.1.0"
     exon            408..559
                     /gene="Clec4d"
                     /gene_synonym="Clecsf8; Mcl"
                     /inference="alignment:Splign:2.1.0"
     exon            560..675
                     /gene="Clec4d"
                     /gene_synonym="Clecsf8; Mcl"
                     /inference="alignment:Splign:2.1.0"
     exon            676..1295
                     /gene="Clec4d"
                     /gene_synonym="Clecsf8; Mcl"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 ttcttttttc acttagcttt cttgtactta ctgatcttgc acttaccgat cttagcaaaa
       61 taagccagat atattggtgt ccagtcttaa atgtttctga agagacacct gtgatggaaa
      121 tatacaccct ggacaagaag taaagaggag cctggaatct cctgacatat agacatacat
      181 aatgtggctg gaagaatccc aaatgaaatc aaaaggtgcc ctgcatcccc agcggatccc
      241 ttgggtttgt gctgttgttt ccatctcgtt cctcagtgct tgctttatct caacttgttt
      301 ggtgactcat tacttcttac tctggaagag aggaagcgcg ttgaagttct cagactacca
      361 cacaaggcta acatgcatcc tagaggagcc acagcctgga gctacaggag gtacctggac
      421 ctgctgtcct gttagctgga gagcattcca gtctaactgt tactttcctc ttaatgacaa
      481 ccagacctgg catgagagtg agaggaactg ctcggggatg agcagtcatc tggtgaccat
      541 caacacagaa gcagaacagg attttgtgac tcaacttttg gatgaacaat tttcctattt
      601 cttgggactt tcttatgaga aggtggaagg tcaatggcaa tgggtggaca agacgccatt
      661 caacccaaac gtggtattct ggaaagttgg ggaacccaag gactatatgg aagaagactg
      721 tgttgtcctt gtttatgacc aagataaatg ggtctggaat gattttcctt gtcactttga
      781 gatgggaagg atttgtaagt tacctggagc aacatttgat tggaatccct cgaagtgatc
      841 cttatgatgg ggatggagaa gacaaaccta tcagacccag ggaaagtgta tgtgtcatag
      901 aaatagagaa cacattgggt catagagcat agttaaccac gaggatgttc atcattattt
      961 ttgtttaaat ttaattcaat gtacatagtg tggtttgccc tccctctctc ccccccctct
     1021 ttctctcatg tgtgtgtgta tgtgtgtaca caccagcatg tgcacacata tgtttaagat
     1081 agtaaggttc tgtgtggtgt tttggtagag agaatgacca tcatcctatg ggattcaggt
     1141 tttaattgtt gcttccttga gagtatttta agaatttatt tttcagttgg tatgtttttg
     1201 ttttatattt aatgaaagga ttaggtttgt aatctttttt catttttctc ttgtcttaat
     1261 tattacctct taaaatccaa acttacagca gacaa
//
