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    CLEC4D C-type lectin domain family 4 member D [ Homo sapiens (human) ]

    Gene ID: 338339, updated on 27-Nov-2024

    Summary

    Official Symbol
    CLEC4Dprovided by HGNC
    Official Full Name
    C-type lectin domain family 4 member Dprovided by HGNC
    Primary source
    HGNC:HGNC:14554
    See related
    Ensembl:ENSG00000166527 MIM:609964; AllianceGenome:HGNC:14554
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    MCL; MPCL; CD368; CLEC6; CLEC-6; CLECSF8; Dectin-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. 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]
    Expression
    Biased expression in bone marrow (RPKM 17.6), appendix (RPKM 4.0) and 1 other tissue See more
    Orthologs
    NEW
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    Genomic context

    See CLEC4D in Genome Data Viewer
    Location:
    12p13.31
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (8513503..8531696)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (8496932..8515063)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (8666099..8674962)

    Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene RNA, U6 small nuclear 275, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5935 Neighboring gene SPT4 homolog, DSIF elongation factor subunit pseudogene 2 Neighboring gene C-type lectin domain family 4 member E Neighboring gene uncharacterized LOC124902872 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr12:8715978-8716610 Neighboring gene uncharacterized LOC105369645 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:8717245-8717876

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC40078

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables D-mannose binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables carbohydrate binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables immunoglobulin receptor binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables pattern recognition receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables pattern recognition receptor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in Fc-gamma receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in T cell differentiation involved in immune response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in adaptive immune response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in antifungal innate immune response IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in antifungal innate immune response IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in defense response to bacterium IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of canonical NF-kappaB signal transduction IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of myeloid dendritic cell activation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    is_active_in external side of plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in ficolin-1-rich granule membrane TAS
    Traceable Author Statement
    more info
     
    is_active_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
     
    located_in specific granule membrane TAS
    Traceable Author Statement
    more info
     
    located_in tertiary granule membrane TAS
    Traceable Author Statement
    more info
     

    General protein information

    Preferred Names
    C-type lectin domain family 4 member D
    Names
    C-type (calcium dependent, carbohydrate-recognition domain) lectin, superfamily member 8
    C-type lectin receptor
    C-type lectin superfamily member 8
    C-type lectin-like receptor 6
    DC-associated C-type lectin 3
    Dectin 3
    dendritic cell-associated C-type lectin 3
    macrophage C-type lectin

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_080387.5NP_525126.2  C-type lectin domain family 4 member D

      See identical proteins and their annotated locations for NP_525126.2

      Status: REVIEWED

      Source sequence(s)
      AC092746, BC032313, BI909298
      Consensus CDS
      CCDS8593.1
      UniProtKB/Swiss-Prot
      Q8N5J5, Q8WXI8
      Related
      ENSP00000299665.2, ENST00000299665.3
      Conserved Domains (1) summary
      cd03590
      Location:84208
      CLECT_DC-SIGN_like; C-type lectin-like domain (CTLD) of the type found in human dendritic cell (DC)-specific intercellular adhesion molecule 3-grabbing non-integrin (DC-SIGN) and the related receptor, DC-SIGN receptor (DC-SIGNR)

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

      Range
      8513503..8531696
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047428772.1XP_047284728.1  C-type lectin domain family 4 member D isoform X3

    2. XM_047428771.1XP_047284727.1  C-type lectin domain family 4 member D isoform X2

    3. XM_011520632.3XP_011518934.1  C-type lectin domain family 4 member D isoform X1

      See identical proteins and their annotated locations for XP_011518934.1

      UniProtKB/Swiss-Prot
      Q8N5J5, Q8WXI8
      Conserved Domains (1) summary
      cd03590
      Location:84208
      CLECT_DC-SIGN_like; C-type lectin-like domain (CTLD) of the type found in human dendritic cell (DC)-specific intercellular adhesion molecule 3-grabbing non-integrin (DC-SIGN) and the related receptor, DC-SIGN receptor (DC-SIGNR)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060936.1 Alternate T2T-CHM13v2.0

      Range
      8496932..8515063
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054371926.1XP_054227901.1  C-type lectin domain family 4 member D isoform X1

      UniProtKB/Swiss-Prot
      Q8N5J5, Q8WXI8
    2. XM_054371928.1XP_054227903.1  C-type lectin domain family 4 member D isoform X3

    3. XM_054371927.1XP_054227902.1  C-type lectin domain family 4 member D isoform X2