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Aliases for CLEC4D Gene

Aliases for CLEC4D Gene

  • C-Type Lectin Domain Family 4 Member D 2 3 5
  • C-Type (Calcium Dependent, Carbohydrate-Recognition Domain) Lectin, Superfamily Member 8 2 3
  • C-Type Lectin Superfamily Member 8 3 4
  • C-Type Lectin-Like Receptor 6 3 4
  • Dectin 3 2 3
  • CLECSF8 3 4
  • CLEC-6 3 4
  • MCL 3 4
  • C-Type Lectin Domain Family 4, Member D 2
  • Macrophage C-Type Lectin 3
  • C-Type Lectin Receptor 3
  • Dectin-3 3
  • CD368 3
  • CLEC6 3
  • MPCL 3

External Ids for CLEC4D Gene

Previous HGNC Symbols for CLEC4D Gene


Previous GeneCards Identifiers for CLEC4D Gene

  • GC12P008559
  • GC12P008666
  • GC12P008448

Summaries for CLEC4D Gene

Entrez Gene Summary for CLEC4D Gene

  • 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]

GeneCards Summary for CLEC4D Gene

CLEC4D (C-Type Lectin Domain Family 4 Member D) is a Protein Coding gene. Among its related pathways are CLEC7A (Dectin-1) signaling and Innate Immune System. Gene Ontology (GO) annotations related to this gene include carbohydrate binding. An important paralog of this gene is CLEC4C.

UniProtKB/Swiss-Prot for CLEC4D Gene

  • Functions as an endocytic receptor. May be involved in antigen uptake at the site of infection, either for clearance of the antigen, or for processing and further presentation to T cells.

Additional gene information for CLEC4D Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CLEC4D Gene

Genomics for CLEC4D Gene

GeneHancer (GH) Regulatory Elements for CLEC4D Gene

Promoters and enhancers for CLEC4D Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH12I008513 Promoter 0.5 EPDnew 567.3 +4.0 4044 0.1 CLEC4D SUPT4H1P2 GC12P008530
GH12I008515 Enhancer 0.2 Ensembl 17.5 +5.4 5426 1.8 CLEC4D CLEC4E SUPT4H1P2 GC12P008530
GH12I008516 Enhancer 0.2 Ensembl 16 +4.2 4226 0.2 SUPT4H1P2 CLEC4D GC12P008530
GH12I008617 Enhancer 1.2 FANTOM5 Ensembl ENCODE 1.9 +109.4 109419 2.7 PKNOX1 JUN CEBPG BMI1 BATF GTF3C2 FOSL1 ATF7 FOSL2 IKZF2 CLEC4E A2ML1 A2ML1-AS2 CLEC6A M6PR CLEC4A CLEC4D GC12P008623 AICDA
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around CLEC4D on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CLEC4D gene promoter:

Genomic Locations for CLEC4D Gene

Genomic Locations for CLEC4D Gene
12,892 bases
Plus strand

Genomic View for CLEC4D Gene

Genes around CLEC4D on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CLEC4D Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CLEC4D Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CLEC4D Gene

Proteins for CLEC4D Gene

  • Protein details for CLEC4D Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    C-type lectin domain family 4 member D
    Protein Accession:
    Secondary Accessions:
    • Q8N5J5

    Protein attributes for CLEC4D Gene

    215 amino acids
    Molecular mass:
    24704 Da
    Quaternary structure:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for CLEC4D Gene

neXtProt entry for CLEC4D Gene

Post-translational modifications for CLEC4D Gene

  • Glycosylation at posLast=4545, posLast=102102, and posLast=111111

Other Protein References for CLEC4D Gene

No data available for DME Specific Peptides for CLEC4D Gene

Domains & Families for CLEC4D Gene

Gene Families for CLEC4D Gene

Suggested Antigen Peptide Sequences for CLEC4D Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with CLEC4D: view

No data available for UniProtKB/Swiss-Prot for CLEC4D Gene

Function for CLEC4D Gene

Molecular function for CLEC4D Gene

UniProtKB/Swiss-Prot Function:
Functions as an endocytic receptor. May be involved in antigen uptake at the site of infection, either for clearance of the antigen, or for processing and further presentation to T cells.
UniProtKB/Swiss-Prot Induction:
By autocrine inflammatory stimuli.

Phenotypes From GWAS Catalog for CLEC4D Gene

Gene Ontology (GO) - Molecular Function for CLEC4D Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25910212
GO:0030246 carbohydrate binding IEA --
GO:0034987 immunoglobulin receptor binding IEA --
genes like me logo Genes that share ontologies with CLEC4D: view
genes like me logo Genes that share phenotypes with CLEC4D: view

Animal Models for CLEC4D Gene

MGI Knock Outs for CLEC4D:

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CLEC4D Gene

Localization for CLEC4D Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLEC4D Gene

Membrane; Single-pass type II membrane protein.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CLEC4D gene
Compartment Confidence
plasma membrane 5
extracellular 4

Gene Ontology (GO) - Cellular Components for CLEC4D Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane TAS,IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0035579 specific granule membrane TAS --
GO:0070821 tertiary granule membrane TAS --
genes like me logo Genes that share ontologies with CLEC4D: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for CLEC4D Gene

Pathways & Interactions for CLEC4D Gene

genes like me logo Genes that share pathways with CLEC4D: view

Pathways by source for CLEC4D Gene

Interacting Proteins for CLEC4D Gene

STRING Interaction Network Preview (showing 2 interactants - click image to see details)
Selected Interacting proteins: ENSP00000299665 Q8WXI8-CLC4D_HUMAN for CLEC4D Gene via STRING UniProtKB IID

Gene Ontology (GO) - Biological Process for CLEC4D Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002223 stimulatory C-type lectin receptor signaling pathway TAS --
GO:0002250 adaptive immune response IEA --
GO:0002292 T cell differentiation involved in immune response IEA --
GO:0002376 immune system process IEA --
GO:0038094 Fc-gamma receptor signaling pathway IEA --
genes like me logo Genes that share ontologies with CLEC4D: view

No data available for SIGNOR curated interactions for CLEC4D Gene

Drugs & Compounds for CLEC4D Gene

(2) Drugs for CLEC4D Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(2) Additional Compounds for CLEC4D Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with CLEC4D: view

Transcripts for CLEC4D Gene

mRNA/cDNA for CLEC4D Gene

(3) REFSEQ mRNAs :
(7) Additional mRNA sequences :
(12) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for CLEC4D Gene

C-type lectin domain family 4, member D:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for CLEC4D Gene

No ASD Table

Relevant External Links for CLEC4D Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CLEC4D Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CLEC4D Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CLEC4D Gene

This gene is overexpressed in Whole Blood (x45.9).

Protein differential expression in normal tissues from HIPED for CLEC4D Gene

This gene is overexpressed in Monocytes (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for CLEC4D Gene

Protein tissue co-expression partners for CLEC4D Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CLEC4D Gene:


SOURCE GeneReport for Unigene cluster for CLEC4D Gene:


mRNA Expression by UniProt/SwissProt for CLEC4D Gene:

Tissue specificity: Expressed weakly in peripheral blood leukocytes, bone marrow and spleen. Expression is confined mostly in monocytes and macrophage and seems to be up-regulated by IL-6, IL-10, TNF-alpha and IFN-gamma.

Evidence on tissue expression from TISSUES for CLEC4D Gene

  • Blood(4.1)
genes like me logo Genes that share expression patterns with CLEC4D: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for CLEC4D Gene

Orthologs for CLEC4D Gene

This gene was present in the common ancestor of mammals.

Orthologs for CLEC4D Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia CLEC4D 33 34
  • 99.38 (n)
(Canis familiaris)
Mammalia CLEC4D 33 34
  • 80.38 (n)
(Bos Taurus)
Mammalia CLEC4D 33 34
  • 79.25 (n)
(Mus musculus)
Mammalia Clec4d 33 16 34
  • 74.61 (n)
(Rattus norvegicus)
Mammalia Clec4d 33
  • 73.87 (n)
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 47 (a)
Species where no ortholog for CLEC4D was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for CLEC4D Gene

Gene Tree for CLEC4D (if available)
Gene Tree for CLEC4D (if available)

Paralogs for CLEC4D Gene

Paralogs for CLEC4D Gene

(13) SIMAP similar genes for CLEC4D Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with CLEC4D: view

Variants for CLEC4D Gene

Sequence variations from dbSNP and Humsavar for CLEC4D Gene

SNP ID Clin Chr 12 pos Variation AA Info Type
rs4304840 benign, not specified 8,515,301(+) A/G coding_sequence_variant, missense_variant
rs1000033961 -- 8,514,735(+) C/T intron_variant
rs1000218007 -- 8,512,616(+) C/T upstream_transcript_variant
rs1000246294 -- 8,517,468(+) G/T intron_variant
rs1000460248 -- 8,511,620(+) G/C upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for CLEC4D Gene

Variant ID Type Subtype PubMed ID
dgv1362n100 CNV gain 25217958
nsv1035270 CNV gain 25217958
nsv1051530 CNV gain 25217958
nsv518125 CNV loss 19592680
nsv518772 CNV gain 19592680
nsv526021 CNV loss 19592680
nsv557342 CNV loss 21841781

Variation tolerance for CLEC4D Gene

Residual Variation Intolerance Score: 72.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.54; 72.10% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CLEC4D Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CLEC4D Gene

Disorders for CLEC4D Gene

Additional Disease Information for CLEC4D

No disorders were found for CLEC4D Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CLEC4D Gene

Publications for CLEC4D Gene

  1. The human C-type lectin CLECSF8 is a novel monocyte/macrophage endocytic receptor. (PMID: 14971047) Arce I … Fernández-Ruiz E (European journal of immunology 2004) 3 4 22 58
  2. Identification of lectin-like receptors expressed by antigen presenting cells and neutrophils and their mapping to a novel gene complex. (PMID: 15368084) Flornes LM … Fossum S (Immunogenetics 2004) 3 4 58
  3. Widespread macromolecular interaction perturbations in human genetic disorders. (PMID: 25910212) Sahni N … Vidal M (Cell 2015) 3 58
  4. Structural analysis for glycolipid recognition by the C-type lectins Mincle and MCL. (PMID: 24101491) Furukawa A … Maenaka K (Proceedings of the National Academy of Sciences of the United States of America 2013) 3 58
  5. The C-type lectin receptor CLECSF8 (CLEC4D) is expressed by myeloid cells and triggers cellular activation through Syk kinase. (PMID: 22689578) Graham LM … Brown GD (The Journal of biological chemistry 2012) 3 58

Products for CLEC4D Gene

Sources for CLEC4D Gene

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