LOCUS       NM_013269               5277 bp    mRNA    linear   PRI 20-MAY-2024
DEFINITION  Homo sapiens C-type lectin domain family 2 member D (CLEC2D),
            transcript variant 1, mRNA.
ACCESSION   NM_013269
VERSION     NM_013269.6
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 5277)
  AUTHORS   de Vicente,J.C., Lequerica-Fernandez,P., Rodrigo,J.P.,
            Rodriguez-Santamarta,T., Blanco-Lorenzo,V., Prieto-Fernandez,L.,
            Corte-Torres,D., Vallina,A., Dominguez-Iglesias,F.,
            Alvarez-Teijeiro,S. and Garcia-Pedrero,J.M.
  TITLE     Lectin-like Transcript-1 (LLT1) Expression in Oral Squamous Cell
            Carcinomas: Prognostic Significance and Relationship with the Tumor
            Immune Microenvironment
  JOURNAL   Int J Mol Sci 25 (8), 4314 (2024)
   PUBMED   38673902
  REMARK    GeneRIF: Lectin-like Transcript-1 (LLT1) Expression in Oral
            Squamous Cell Carcinomas: Prognostic Significance and Relationship
            with the Tumor Immune Microenvironment.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 5277)
  AUTHORS   Hu,X., Dong,Y., Xie,S., Song,Y., Yu,C., He,Y., Wang,Z., Hu,Q.,
            Ni,Y. and Ding,L.
  TITLE     Immune checkpoint CD161/LLT1-associated immunological landscape and
            diagnostic value in oral squamous cell carcinoma
  JOURNAL   J Pathol Clin Res 10 (2), e353 (2024)
   PUBMED   38502058
  REMARK    GeneRIF: Immune checkpoint CD161/LLT1-associated immunological
            landscape and diagnostic value in oral squamous cell carcinoma.
REFERENCE   3  (bases 1 to 5277)
  AUTHORS   Lenart,M., Gorecka,M., Bochenek,M., Barreto-Duran,E.,
            Szczepanski,A., Galuszka-Bulaga,A., Mazur-Panasiuk,N.,
            Weglarczyk,K., Siwiec-Kozlik,A., Korkosz,M., Labaj,P.P.,
            Baj-Krzyworzeka,M., Siedlar,M. and Pyrc,K.
  TITLE     SARS-CoV-2 infection impairs NK cell functions via activation of
            the LLT1-CD161 axis
  JOURNAL   Front Immunol 14, 1123155 (2023)
   PUBMED   37287972
  REMARK    GeneRIF: SARS-CoV-2 infection impairs NK cell functions via
            activation of the LLT1-CD161 axis.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 5277)
  AUTHORS   Braud,V.M., Meghraoui-Kheddar,A., Elaldi,R., Petti,L., Germain,C.
            and Anjuere,F.
  TITLE     LLT1-CD161 Interaction in Cancer: Promises and Challenges
  JOURNAL   Front Immunol 13, 847576 (2022)
   PUBMED   35185935
  REMARK    GeneRIF: LLT1-CD161 Interaction in Cancer: Promises and Challenges.
            Review article
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 5277)
  AUTHORS   Malaer,J.D. and Mathew,P.A.
  TITLE     Role of LLT1 and PCNA as Natural Killer Cell Immune Evasion
            Strategies of HCT 116 Cells
  JOURNAL   Anticancer Res 40 (12), 6613-6621 (2020)
   PUBMED   33288556
  REMARK    GeneRIF: Role of LLT1 and PCNA as Natural Killer Cell Immune
            Evasion Strategies of HCT 116 Cells.
REFERENCE   6  (bases 1 to 5277)
  AUTHORS   Carlyle,J.R., Jamieson,A.M., Gasser,S., Clingan,C.S., Arase,H. and
            Raulet,D.H.
  TITLE     Missing self-recognition of Ocil/Clr-b by inhibitory NKR-P1 natural
            killer cell receptors
  JOURNAL   Proc Natl Acad Sci U S A 101 (10), 3527-3532 (2004)
   PUBMED   14990792
REFERENCE   7  (bases 1 to 5277)
  AUTHORS   Mathew,P.A., Chuang,S.S., Vaidya,S.V., Kumaresan,P.R., Boles,K.S.
            and Pham,H.T.
  TITLE     The LLT1 receptor induces IFN-gamma production by human natural
            killer cells
  JOURNAL   Mol Immunol 40 (16), 1157-1163 (2004)
   PUBMED   15104121
  REMARK    GeneRIF: LLT1 induces Interferon Type II production by natural
            killer cells.
REFERENCE   8  (bases 1 to 5277)
  AUTHORS   Hu,Y.S., Zhou,H., Myers,D., Quinn,J.M., Atkins,G.J., Ly,C.,
            Gange,C., Kartsogiannis,V., Elliott,J., Kostakis,P.,
            Zannettino,A.C., Cromer,B., McKinstry,W.J., Findlay,D.M.,
            Gillespie,M.T. and Ng,K.W.
  TITLE     Isolation of a human homolog of osteoclast inhibitory lectin that
            inhibits the formation and function of osteoclasts
  JOURNAL   J Bone Miner Res 19 (1), 89-99 (2004)
   PUBMED   14753741
REFERENCE   9  (bases 1 to 5277)
  AUTHORS   Iizuka,K., Naidenko,O.V., Plougastel,B.F., Fremont,D.H. and
            Yokoyama,W.M.
  TITLE     Genetically linked C-type lectin-related ligands for the NKRP1
            family of natural killer cell receptors
  JOURNAL   Nat Immunol 4 (8), 801-807 (2003)
   PUBMED   12858173
REFERENCE   10 (bases 1 to 5277)
  AUTHORS   Boles,K.S., Barten,R., Kumaresan,P.R., Trowsdale,J. and Mathew,P.A.
  TITLE     Cloning of a new lectin-like receptor expressed on human NK cells
  JOURNAL   Immunogenetics 50 (1-2), 1-7 (1999)
   PUBMED   10541800
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DB111977.1, AK313554.1 and
            AC007068.17.
            
            On Nov 23, 2018 this sequence version replaced NM_013269.5.
            
            Summary: This gene encodes a member of the natural killer cell
            receptor C-type lectin family. The encoded protein inhibits
            osteoclast formation and contains a transmembrane domain near the
            N-terminus as well as the C-type lectin-like extracellular domain.
            Several alternatively spliced transcript variants have been
            identified for this gene. [provided by RefSeq, Oct 2010].
            
            Transcript Variant: This variant (1) represents the most frequently
            occurring transcript. It encodes isoform 1.
            
            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.
            
            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 :: BP345170.1, SRR1163655.129723.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000290855.11/ ENSP00000290855.6
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-4                 DB111977.1         6-9
            5-488               AK313554.1         1-484
            489-5277            AC007068.17        163963-168751       c
FEATURES             Location/Qualifiers
     source          1..5277
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="12"
                     /map="12p13.31"
     gene            1..5277
                     /gene="CLEC2D"
                     /gene_synonym="CLAX; LLT1; OCIL"
                     /note="C-type lectin domain family 2 member D"
                     /db_xref="GeneID:29121"
                     /db_xref="HGNC:HGNC:14351"
                     /db_xref="MIM:605659"
     exon            1..83
                     /gene="CLEC2D"
                     /gene_synonym="CLAX; LLT1; OCIL"
                     /inference="alignment:Splign:2.1.0"
     CDS             23..598
                     /gene="CLEC2D"
                     /gene_synonym="CLAX; LLT1; OCIL"
                     /note="isoform 1 is encoded by transcript variant 1;
                     C-type lectin related f; lectin-like transcript 1;
                     lectin-like NK cell receptor; C-type lectin superfamily 2,
                     member D; osteoclast inhibitory lectin; LLT-1"
                     /codon_start=1
                     /product="C-type lectin domain family 2 member D isoform
                     1"
                     /protein_id="NP_037401.1"
                     /db_xref="CCDS:CCDS8602.1"
                     /db_xref="GeneID:29121"
                     /db_xref="HGNC:HGNC:14351"
                     /db_xref="MIM:605659"
                     /translation="MHDSNNVEKDITPSELPANPGCLHSKEHSIKATLIWRLFFLIMF
                     LTIIVCGMVAALSAIRANCHQEPSVCLQAACPESWIGFQRKCFYFSDDTKNWTSSQRF
                     CDSQDADLAQVESFQELNFLLRYKGPSDHWIGLSREQGQPWKWINGTEWTRQFPILGA
                     GECAYLNDKGASSARHYTERKWICSKSDIHV"
     exon            84..194
                     /gene="CLEC2D"
                     /gene_synonym="CLAX; LLT1; OCIL"
                     /inference="alignment:Splign:2.1.0"
     exon            195..379
                     /gene="CLEC2D"
                     /gene_synonym="CLAX; LLT1; OCIL"
                     /inference="alignment:Splign:2.1.0"
     exon            380..483
                     /gene="CLEC2D"
                     /gene_synonym="CLAX; LLT1; OCIL"
                     /inference="alignment:Splign:2.1.0"
     exon            484..5277
                     /gene="CLEC2D"
                     /gene_synonym="CLAX; LLT1; OCIL"
                     /inference="alignment:Splign:2.1.0"
     regulatory      834..839
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CLEC2D"
                     /gene_synonym="CLAX; LLT1; OCIL"
                     /note="hexamer: AATAAA"
     polyA_site      853
                     /gene="CLEC2D"
                     /gene_synonym="CLAX; LLT1; OCIL"
                     /note="major polyA site"
     regulatory      2069..2074
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CLEC2D"
                     /gene_synonym="CLAX; LLT1; OCIL"
                     /note="hexamer: GATAAA"
     polyA_site      2100
                     /gene="CLEC2D"
                     /gene_synonym="CLAX; LLT1; OCIL"
                     /note="major polyA site"
     polyA_site      3259
                     /gene="CLEC2D"
                     /gene_synonym="CLAX; LLT1; OCIL"
                     /note="major polyA site"
     regulatory      5141..5146
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CLEC2D"
                     /gene_synonym="CLAX; LLT1; OCIL"
                     /note="hexamer: AGTAAA"
     polyA_site      5159
                     /gene="CLEC2D"
                     /gene_synonym="CLAX; LLT1; OCIL"
     regulatory      5246..5251
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CLEC2D"
                     /gene_synonym="CLAX; LLT1; OCIL"
                     /note="hexamer: AATAAA"
     polyA_site      5277
                     /gene="CLEC2D"
                     /gene_synonym="CLAX; LLT1; OCIL"
ORIGIN      
        1 actcatagaa actggaggca aaatgcatga cagtaacaat gtggagaaag acattacacc
       61 atctgaattg cctgcaaacc caggttgtct gcattcaaaa gagcattcta ttaaagctac
      121 cttaatttgg cgcttatttt tcttaatcat gtttctgaca atcatagtgt gtggaatggt
      181 tgctgcttta agcgcaataa gagctaactg ccatcaagag ccatcagtat gtcttcaagc
      241 tgcatgccca gaaagctgga ttggttttca aagaaagtgt ttctattttt ctgatgacac
      301 caagaactgg acatcaagtc agaggttttg tgactcacaa gatgctgatc ttgctcaggt
      361 tgaaagcttc caggaactga atttcctgtt gagatataaa ggcccatctg atcactggat
      421 tgggctgagc agagaacaag gccaaccatg gaaatggata aatggtactg aatggacaag
      481 acagtttcct atcctgggag caggagagtg tgcctatttg aatgacaaag gtgccagtag
      541 tgccaggcac tacacagaga ggaagtggat ttgttccaaa tcagatatac atgtctagat
      601 gttacagcaa agccccaact aatctttaga agcatattgg aactgataac tccattttaa
      661 aatgagcaaa gaatttattt cttataccaa caggtatatg aaaatatgct caatatcact
      721 aataactggg aaaatacaaa tcaaaatcat agtaaaatat tacctgtttt catggtgcta
      781 atattacctg ttctcccact gctaatgaca tacccgagac tgagtaattt ataaataaaa
      841 gagatttaat tgactcatag ttccacatgg ctggggaggt cttgcaatca tgacagaagg
      901 caaatgggaa gcaaagtcat gtcttatgtg gtggcaggca gggggacttg tgcacaggaa
      961 ctcctattta tacaaccatc agatatcttg agacaagaac agtatggggc tccctggtgt
     1021 gattccgtcc tgcgcggctg ttctctggag cagcattcat ttatcttcgt ctgccttgtc
     1081 tcctacctaa gtgtgtgtcg ccacccgatg gaagattcga tggacatgga catgagcccc
     1141 ctgaggcccc agaactatct tttcagttgt gaactaaagg ccgacaaaga tgatcacttt
     1201 aaggtggata atgatgaaaa tgagaccagt tatctttaag aacggtcagc tcaggggctg
     1261 gtgcaaagga tgaactgcac attgttgaag cagaggccat gaatgacgaa ggcagtccaa
     1321 ttaaagtaac actggcaact ttgaaaatgt ctgtacagcc aacggtttct cttgggggct
     1381 ttgaaataac accaccagtg gacttaaggt tgaagtgtgg ttcagggcca gtgcatatta
     1441 gtggacagca cttagtagct gtgaaggaag gtgcagagtc agaagatgaa gaagaggagg
     1501 atgtgaaact cttaagtata tctggaaagc agtctgcccc tggaggtggg cagaaaaaag
     1561 taaaacttgc tgctgctgct gatgatgatg atgatgaaga tgatgatgat gatgatgacg
     1621 aggaagctga agaaaaagcg ccagtgaaga aatctatacg agatactcca gccaaaaatg
     1681 cacaaaagtc aaatcagaat ggaaaagact caaaaccatc atcaacacca agatcaaaag
     1741 gacaagaatc cttcaaaaaa caggaaaaat ctcctaaaac accaaaagga tctagttctg
     1801 tagaagacat taaagcaaaa atgcaagcaa gtatagaaaa acgtggttct cttcccaaag
     1861 tggaaaccaa gttcatcaat tatgtgaaga atttcttctg gatgactgac caagaggcta
     1921 ttcaagatct ctggcagtgg aggaagtctc tttaagaaaa tagtttaaac aatttgttaa
     1981 aaattttcca tcttatttca tttctgtaac agttgatatc tggctgtcct ttttatagtg
     2041 cagagtgaga actttcccta ccatgtttga taaatgttgt ccaggttcta ttgccaagaa
     2101 tgtgttgtcc aaaatgcctg tttagttttt aaagatggaa ctccaccctt tgcttggttt
     2161 taagtatgta tgggatgcta tgataggaca tagtagtagc agtggtcaga catggaaatg
     2221 gtggggagac aaaagtatac acgtgaaata aaactcagta ttttaataaa gtaaaaaaaa
     2281 aaaaaaaggt atggggaaaa ctgcccccat aaagcaattg tctccacctg gccctgccct
     2341 ttgcatgtgg agattattac aattcaaggt gaaatttggg tggagacaca accaaaccat
     2401 atcagatggc tatatcaaaa agacaagaaa taacaagcat tggtgagagt gtggagaaga
     2461 cggaaccctt gtacacagtt ggtgggaaca cagtttggtg cagccattat agaaaacgtc
     2521 atggaggttc ctaaagaaat taaaaagaga actaccatat gagccagcaa tcccttttcc
     2581 agatatacac ccaaaggaaa tgaaatcacc acctcataaa gatatctgct ttcctgttta
     2641 ttataacaca tctttattca taatagccaa gatacggaac taactgaagt gaccattaac
     2701 agatgaatgg ataaagaaat tgtcatatat ataaaacaca cacattatat acatacatac
     2761 atatatatat atatataaaa aatagaatat tattcagcct tgtaaaaaga aatcctgtta
     2821 tgttgggaac aagcccccca aaatctggcc ataaactcac cccaaaactg gccataaaca
     2881 aaatctctgc agcactgtga catgttagtg atggccataa cacccacgct ggaaggttgt
     2941 gggtttatgg gaatgagggc aaggaacacc tggcctgccc agggtggaaa accacttaaa
     3001 ggcgttctta agctacaaac aatagcatga gcgatctgtg ccttaaggac atgttcctgc
     3061 tgcagttaac tagcccaatc tattccttta attcggccca tcccttcatt tcccataagg
     3121 gatactttta gttaatttaa tatctataga aacaatgcta atgactggct tgctgttaat
     3181 aaatacatgg gtaaatctct gttctgggct ctcagctctg aaggctgtga gacccctgat
     3241 ttcccacttc acacctctat atttctgtgt gtgtgtcttt agttcctctg gcgctgctgg
     3301 gttaggatct acccgactga gctggtctca gcactgttat ttgaaacaat gtaaataaac
     3361 ctatagggtt tattatatat actaagtgaa ataagccaga cacagaaaaa aaatgttgca
     3421 tgatctcact tatagtgaaa cttaaaaaaa aaacccaaat acatagaaat agagtagaat
     3481 ggtggttacc agagatgagg aaaatacaga gacacaggtc aaaagataca gagttgcagt
     3541 tacaaagggt gagtatgtct agatatctaa catacagtat gaggactata atagtattgc
     3601 actgtgtact gaaaacttga tgacagattt tagatattct taccacacag acaaaaagaa
     3661 atgtaagtat gtgagatgaa gcttatgtta attagattaa gtgtatgtac ataaaaacat
     3721 cacattatac acatcaaata tatacaataa aaaagcacat tgggagatac atgataaatt
     3781 tctatctgca gttgctattt gcatttttaa aggatatttt tattttttaa atttttagct
     3841 gacaactgta taattatgga atacaatgtg atgttctgat atatgtgtac actatggaat
     3901 gattaaatca aactaacatt tcatcatctc acatacttat cattttctgt ggtgagaaca
     3961 tttgaaattt attctcttga caattttgaa agatccaata cactattatt aactatagtc
     4021 actatgctgt gcaatagatc tcaaaagctt attcctctta actgaaacct actaccctgt
     4081 gacatgtggg gaacatctct ctattcccca gccccagtcc ctaaatgttg aatacacaat
     4141 ggggaaaaaa tagtcttcaa tgaatggtgg tgggaaaatt gtatatccac atgcagaaga
     4201 ataaaattgg acccttacct cctaccatat ataaaaacca actgaaaatc gattaaagac
     4261 ttaaactgta aaactactaa aagaaaatat agggagaaag cttcacaacg ttggtctggg
     4321 caataatttt tggatttgac ctcaaaagta gatgcaacca cagtgaaaat aaacaaatga
     4381 aattgcataa aataaaaaat gtttctgcac agcaaaggaa ataattaatg gagtaaagag
     4441 acaacttaca gattgggaga atatatttcc aaactattgt tggggctcag aaacggatac
     4501 cctaacatat agtgatttga caggtggaac taaagaagac tcgaggtctc tctgacctcc
     4561 tcctcaacct ctgtttctta atcctctgtt ttcccagagc acaggaggaa gttctctgaa
     4621 gttcctttat ctgctttaag ttcagactca ccaaataaga aaacagttaa ttctggtgcc
     4681 ttccatgggt tttcattaac tgaagtcata ttgtaggaaa aagaatgaag tctcttaacc
     4741 cacctggata gatttttctc acaaaccatt gtcttctctg caagcccagt agactttgtc
     4801 ccaggccatt tatgtgatct tcaccccatt aagttctccc caaattattt actcttcccc
     4861 caaaatcacc cacacttccc catctccctc tcccctaagg acaagggtat atcaccatct
     4921 ataccccatt gcttggtggg gtgatcactc tgattctctg catgcatttt tatagatttg
     4981 tttgccattt atcctattaa tctgcattct gtcaattgtg gcaagttatc agcatatttt
     5041 ttaactttta attattctta atggaaagac acttctgtat acactggaaa tctcaggaaa
     5101 tttctttttt ccttaagctt aattgaaatg tttacttttc agtaaaattt caagcttgag
     5161 taatgttcat gcctgctttt cattgaaata gaatgaaaag gttgcacaat attattttca
     5221 tgaaattact tctagtataa ttctgaataa acactttgaa aggcagtgaa ctgtaaa
//
