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Aliases for CLEC4D Gene

Aliases for CLEC4D Gene

  • C-Type Lectin Domain Family 4, Member D 2 3
  • CLECSF8 3 4 6
  • 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
  • CLEC-6 3 4
  • CLEC6 3 6
  • MCL 3 4
  • C-Type Lectin Domain Family 4 Member D 3
  • Macrophage C-Type Lectin 3
  • C-Type Lectin Receptor 3
  • MPCL 3

External Ids for CLEC4D Gene

Previous HGNC Symbols for CLEC4D Gene

  • CLECSF8

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. GO annotations related to this gene include carbohydrate binding. An important paralog of this gene is CLEC6A.

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.

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

Genomics for CLEC4D Gene

Regulatory Elements for CLEC4D Gene

Genomic Location for CLEC4D Gene

Start:
8,509,475 bp from pter
End:
8,522,366 bp from pter
Size:
12,892 bases
Orientation:
Plus strand

Genomic View for CLEC4D Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
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:
    Q8WXI8-CLC4D_HUMAN
    Recommended name:
    C-type lectin domain family 4 member D
    Protein Accession:
    Q8WXI8
    Secondary Accessions:
    • Q8N5J5

    Protein attributes for CLEC4D Gene

    Size:
    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

Proteomics data for CLEC4D Gene at MOPED

Post-translational modifications for CLEC4D Gene

  • Glycosylation at Asn45, Asn102, and Asn111
  • Modification sites at PhosphoSitePlus

Other Protein References for CLEC4D Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for CLEC4D Gene

Domains for CLEC4D Gene

Gene Families for CLEC4D Gene

HGNC:
  • CLEC :C-type lectin domain containing

Protein Domains for CLEC4D Gene

Suggested Antigen Peptide Sequences for CLEC4D Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q8WXI8

UniProtKB/Swiss-Prot:

CLC4D_HUMAN :
  • Q8WXI8
Domain:
  • Contains 1 C-type lectin domain.
genes like me logo Genes that share domains with CLEC4D: view

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.

Gene Ontology (GO) - Molecular Function for CLEC4D Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0030246 carbohydrate 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:

miRNA for CLEC4D Gene

miRTarBase miRNAs that target CLEC4D

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targeting 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

COMPARTMENTS
Jensen Localization Image for CLEC4D Gene COMPARTMENTS Subcellular localization image for CLEC4D gene
Compartment Confidence
extracellular 3
plasma membrane 3
cytosol 1
nucleus 1

Gene Ontology (GO) - Cellular Components for CLEC4D Gene

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

Pathways for CLEC4D Gene

SuperPathways for CLEC4D Gene

No Data Available

Interacting Proteins for CLEC4D Gene

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:0045087 innate immune response TAS --
genes like me logo Genes that share ontologies with CLEC4D: view

No data available for Pathways by source for CLEC4D Gene

Compounds for CLEC4D Gene

(4) Novoseek inferred chemical compound relationships for CLEC4D Gene

Compound -log(P) Hits PubMed IDs
mannose 76.8 8
polysaccharide 45.1 5
carbohydrates 35.7 1
tyrosine 0.059 3
genes like me logo Genes that share compounds with CLEC4D: view

Transcripts for CLEC4D Gene

mRNA/cDNA for CLEC4D Gene

(12) Selected AceView cDNA sequences:
(3) REFSEQ mRNAs :
(7) Additional mRNA 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:

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

No ASD Table

Relevant External Links for CLEC4D Gene

GeneLoc Exon Structure for
CLEC4D
ECgene alternative splicing isoforms for
CLEC4D

Expression for CLEC4D Gene

mRNA expression in normal human tissues 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 (45.9).

Integrated Proteomics: protein expression from ProteomicsDB and MOPED for CLEC4D Gene

SOURCE GeneReport for Unigene cluster for CLEC4D Gene Hs.351811

mRNA Expression by UniProt/SwissProt for CLEC4D Gene

Q8WXI8-CLC4D_HUMAN
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.
genes like me logo Genes that share expressions with CLEC4D: view

Orthologs for CLEC4D Gene

This gene was present in the common ancestor of mammals.

Orthologs for CLEC4D Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CLEC4D 35
  • 99.38 (n)
  • 98.14 (a)
CLEC4D 36
  • 98 (a)
OneToOne
cow
(Bos Taurus)
Mammalia CLEC4D 35
  • 79.25 (n)
  • 66.98 (a)
CLEC4D 36
  • 67 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CLEC4D 35
  • 80.38 (n)
  • 69.38 (a)
CLEC4D 36
  • 69 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Clec4d 35
  • 74.61 (n)
  • 61.68 (a)
Clec4d 16
Clec4d 36
  • 61 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 47 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Clec4d 35
  • 73.87 (n)
  • 59.15 (a)
Species with no ortholog for CLEC4D:
  • 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

ENSEMBL:
Gene Tree for CLEC4D (if available)
TreeFam:
Gene Tree for CLEC4D (if available)

Paralogs for CLEC4D Gene

Selected 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 Sequence Context AA Info Type MAF
rs4304840 - 8,515,301(+) TTCTC(A/G)GTGTC reference, missense
rs4486677 -- 8,516,520(+) aatta(G/T)caggg intron-variant
rs4534636 -- 8,514,205(+) AAATG(A/T)TTAAA intron-variant
rs6487219 -- 8,521,657(+) TATTC(C/T)AACTG utr-variant-3-prime
rs6487220 -- 8,521,713(+) GATTT(G/T)AAACC utr-variant-3-prime

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

Variant ID Type Subtype PubMed ID
nsv518772 CNV Gain 19592680
nsv518125 CNV Loss 19592680
nsv526021 CNV Loss 19592680
nsv898737 CNV Loss 21882294

Relevant External Links for CLEC4D Gene

HapMap Linkage Disequilibrium report
CLEC4D

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

Disorders for CLEC4D Gene

(4) Novoseek inferred disease relationships for CLEC4D Gene

Disease -log(P) Hits PubMed IDs
immunodeficiency 24.1 2
hiv infections 18.5 2
tumors 0 1
cancer 0 1
genes like me logo Genes that share disorders with CLEC4D: view

No data available for UniProtKB/Swiss-Prot 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. … Fernandez-Ruiz E. (Eur. J. Immunol. 2004) 3 4 23
  2. Identification of lectin-like receptors expressed by antigen presenting cells and neutrophils and their mapping to a novel gene complex. (PMID: 15368084) Flornes L.M. … Fossum S. (Immunogenetics 2004) 3 4
  3. Toward a confocal subcellular atlas of the human proteome. (PMID: 18029348) Barbe L. … Andersson-Svahn H. (Mol. Cell Proteomics 2008) 3
  4. The C-type lectin receptor CLECSF8 (CLEC4D) is expressed by myeloid cells and triggers cellular activation through Syk kinase. (PMID: 22689578) Graham L.M. … Brown G.D. (J. Biol. Chem. 2012) 3
  5. Structural analysis for glycolipid recognition by the C-type lectins Mincle and MCL. (PMID: 24101491) Furukawa A. … Maenaka K. (Proc. Natl. Acad. Sci. U.S.A. 2013) 3

Products for CLEC4D Gene

Sources for CLEC4D Gene

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