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Aliases for CLEC4C Gene

Aliases for CLEC4C Gene

  • C-Type Lectin Domain Family 4, Member C 2 3
  • CLECSF11 3 4 6
  • BDCA2 3 4 6
  • DLEC 3 4 6
  • C-Type (Calcium Dependent, Carbohydrate-Recognition Domain) Lectin, Superfamily Member 7 2 3
  • C-Type Lectin Superfamily Member 7 3 4
  • Dendritic Lectin 3 4
  • CLECSF7 3 4
  • BDCA-2 3 4
  • HECL 3 4
  • C-Type (Calcium Dependent, Carbohydrate-Recognition Domain) Lectin, Superfamily Member 11 3
  • C-Type Lectin Domain Family 4 Member C 3
  • Blood Dendritic Cell Antigen 2 Protein 3
  • Blood Dendritic Cell Antigen 2 4
  • Dendritic Cell Lectin B 3
  • CD303 Antigen 4
  • PRO34150 3
  • CD303 3

External Ids for CLEC4C Gene

Previous HGNC Symbols for CLEC4C Gene

  • CLECSF11
  • CLECSF7

Previous GeneCards Identifiers for CLEC4C Gene

  • GC12M007776
  • GC12M007882

Summaries for CLEC4C Gene

Entrez Gene Summary for CLEC4C 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. The encoded type 2 transmembrane protein may play a role in dendritic cell function. Two transcript variants encoding distinct isoforms have been identified for this gene. [provided by RefSeq, Jul 2008]

GeneCards Summary for CLEC4C Gene

CLEC4C (C-Type Lectin Domain Family 4, Member C) is a Protein Coding gene. Among its related pathways are NOD-like Receptor Signaling Pathways. GO annotations related to this gene include carbohydrate binding. An important paralog of this gene is CLEC4D.

UniProtKB/Swiss-Prot for CLEC4C Gene

  • Involved in antigen-capturing. Target ligand into antigen processing and peptide-loading compartments for presentation to T-cells. May mediate potent inhibition of induction of IFN-alpha/beta expression in plasmacytoid dendritic cells. May act as a signaling receptor that activates protein-tyrosine kinases and mobilizes intracellular calcium. Does not seem to bind mannose.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CLEC4C Gene

Genomics for CLEC4C Gene

Regulatory Elements for CLEC4C Gene

Transcription factor binding sites by QIAGEN in the CLEC4C gene promoter:

Genomic Location for CLEC4C Gene

Start:
7,727,639 bp from pter
End:
7,751,605 bp from pter
Size:
23,967 bases
Orientation:
Minus strand

Genomic View for CLEC4C Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for CLEC4C Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CLEC4C Gene

Proteins for CLEC4C Gene

  • Protein details for CLEC4C Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8WTT0-CLC4C_HUMAN
    Recommended name:
    C-type lectin domain family 4 member C
    Protein Accession:
    Q8WTT0
    Secondary Accessions:
    • D3DUU3
    • Q3T1C3
    • Q6UXS8
    • Q8WXX8

    Protein attributes for CLEC4C Gene

    Size:
    213 amino acids
    Molecular mass:
    25038 Da
    Quaternary structure:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for CLEC4C Gene

    Alternative splice isoforms for CLEC4C Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CLEC4C Gene

Proteomics data for CLEC4C Gene at MOPED

Post-translational modifications for CLEC4C Gene

  • Glycosylation at Asn110, Asn137, and Asn164

Other Protein References for CLEC4C Gene

No data available for DME Specific Peptides for CLEC4C Gene

Domains for CLEC4C Gene

Gene Families for CLEC4C Gene

HGNC:
  • CD :CD molecules
  • CLEC :C-type lectin domain containing

Suggested Antigen Peptide Sequences for CLEC4C Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q8WTT0

UniProtKB/Swiss-Prot:

CLC4C_HUMAN :
  • Q8WTT0
Domain:
  • Contains 1 C-type lectin domain.
genes like me logo Genes that share domains with CLEC4C: view

Function for CLEC4C Gene

Molecular function for CLEC4C Gene

UniProtKB/Swiss-Prot Function: Involved in antigen-capturing. Target ligand into antigen processing and peptide-loading compartments for presentation to T-cells. May mediate potent inhibition of induction of IFN-alpha/beta expression in plasmacytoid dendritic cells. May act as a signaling receptor that activates protein-tyrosine kinases and mobilizes intracellular calcium. Does not seem to bind mannose.

Gene Ontology (GO) - Molecular Function for CLEC4C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0030246 carbohydrate binding IEA --
genes like me logo Genes that share ontologies with CLEC4C: view

Phenotypes for CLEC4C Gene

GenomeRNAi human phenotypes for CLEC4C:
genes like me logo Genes that share phenotypes with CLEC4C: view

No data available for Enzyme Numbers (IUBMB) , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for CLEC4C Gene

Localization for CLEC4C Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLEC4C Gene

Membrane; Single-pass type II membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for CLEC4C Gene COMPARTMENTS Subcellular localization image for CLEC4C gene
Compartment Confidence
plasma membrane 3
extracellular 2
cytosol 1
golgi apparatus 1
nucleus 1

Gene Ontology (GO) - Cellular Components for CLEC4C 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 CLEC4C: view

Pathways for CLEC4C Gene

genes like me logo Genes that share pathways with CLEC4C: view

Pathways by source for CLEC4C Gene

Interacting Proteins for CLEC4C Gene

STRING Interaction Network Preview (showing 2 interactants - click image to see details)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000353500%0d%0a9606.ENSP00000355966%0d%0a9606.ENSP00000289902%0d%0a
Selected Interacting proteins: ENSP00000353500 Q8WTT0-CLC4C_HUMAN for CLEC4C Gene via STRING I2D

Gene Ontology (GO) - Biological Process for CLEC4C 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 CLEC4C: view

Compounds for CLEC4C Gene

(1) HMDB Compounds for CLEC4C Gene

Compound Synonyms Cas Number PubMed IDs
Calcium
  • Ca
7440-70-2
genes like me logo Genes that share compounds with CLEC4C: view

Transcripts for CLEC4C Gene

mRNA/cDNA for CLEC4C Gene

(11) Additional mRNA sequences :
(14) Selected AceView cDNA sequences:
(2) REFSEQ mRNAs :
(6) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for CLEC4C Gene

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

Alternative Splicing Database (ASD) splice patterns (SP) for CLEC4C Gene

ExUns: 1 ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5 ^ 6 ^ 7
SP1: -
SP2:
SP3: -

Relevant External Links for CLEC4C Gene

GeneLoc Exon Structure for
CLEC4C
ECgene alternative splicing isoforms for
CLEC4C

Expression for CLEC4C Gene

mRNA expression in normal human tissues for CLEC4C Gene

mRNA differential expression in normal tissues according to GTEx for CLEC4C Gene

This gene is overexpressed in Whole Blood (36.4) and Testis (7.8).

SOURCE GeneReport for Unigene cluster for CLEC4C Gene Hs.351812

mRNA Expression by UniProt/SwissProt for CLEC4C Gene

Q8WTT0-CLC4C_HUMAN
Tissue specificity: Expressed in plasmacytoid dendritic cells (PDCs). Constitutively expressed in immature monocyte-derived dendritic cells (iMDDC) and is significantly down-regulated upon maturation with LPS but not with TNF-alpha.
genes like me logo Genes that share expressions with CLEC4C: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and Protein expression for CLEC4C Gene

Orthologs for CLEC4C Gene

This gene was present in the common ancestor of mammals.

Orthologs for CLEC4C Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CLEC4C 35
  • 99.69 (n)
  • 99.53 (a)
CLEC4C 36
  • 100 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Clec4b1 35
  • 63.68 (n)
  • 54.23 (a)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 48 (a)
OneToMany
Species with no ortholog for CLEC4C:
  • 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)
  • cow (Bos Taurus)
  • dog (Canis familiaris)
  • 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)
  • rat (Rattus norvegicus)
  • 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 CLEC4C Gene

ENSEMBL:
Gene Tree for CLEC4C (if available)
TreeFam:
Gene Tree for CLEC4C (if available)

Paralogs for CLEC4C Gene

Selected SIMAP similar genes for CLEC4C Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with CLEC4C: view

Variants for CLEC4C Gene

Sequence variations from dbSNP and Humsavar for CLEC4C Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type MAF
rs1894823 -- 7,737,953(+) TTTGG(C/T)CCATG intron-variant
rs2110089 -- 7,735,376(+) CAGGC(A/G)CCTGT intron-variant
rs2889500 -- 7,743,509(-) tactc(A/G)ggagg intron-variant
rs3764005 -- 7,729,399(+) CACTC(A/C)TTTTA downstream-variant-500B, nc-transcript-variant
rs3834934 -- 7,729,430(+) TGAAT(-/AAATGAAT)GTGTG utr-variant-3-prime, nc-transcript-variant

Structural Variations from Database of Genomic Variants (DGV) for CLEC4C Gene

Variant ID Type Subtype PubMed ID
dgv5e196 CNV Duplication 17116639
dgv6e196 CNV Duplication 17116639
esv2422393 CNV Duplication 17116639
dgv57e55 CNV Gain 17911159
dgv454e1 CNV Complex 17122850
dgv455e1 CNV Complex 17122850
nsv428270 CNV Gain 18775914
dgv1354n71 CNV Gain 21882294
esv2662383 CNV Deletion 23128226

Relevant External Links for CLEC4C Gene

HapMap Linkage Disequilibrium report
CLEC4C

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CLEC4C Gene

Disorders for CLEC4C Gene

Relevant External Links for CLEC4C

Genetic Association Database (GAD)
CLEC4C
Human Genome Epidemiology (HuGE) Navigator
CLEC4C
genes like me logo Genes that share disorders with CLEC4C: view

No data available for UniProtKB/Swiss-Prot for CLEC4C Gene

Publications for CLEC4C Gene

  1. Identification and characterization of the gene for a novel C-type lectin (CLECSF7) that maps near the natural killer gene complex on human chromosome 12. (PMID: 11031109) Fernandes M.J. … Calabretta B. (Genomics 2000) 2 3 4 23
  2. Molecular and genomic characterization of human DLEC, a novel member of the C-type lectin receptor gene family preferentially expressed on monocyte-derived dendritic cells. (PMID: 11536172) Arce I. … Fernandez-Ruiz E. (Eur. J. Immunol. 2001) 2 3 4
  3. BDCA-2, a novel plasmacytoid dendritic cell-specific type II C-type lectin, mediates antigen capture and is a potent inhibitor of interferon alpha/beta induction. (PMID: 11748283) Dzionek A. … Schmitz J. (J. Exp. Med. 2001) 3 4
  4. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark H.F. … Gray A.M. (Genome Res. 2003) 3 4
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4

Products for CLEC4C Gene

  • Pathway & Disease-focused RT² Profiler PCR Arrays
  • QIAGEN qRT-PCR Assays for microRNAs that regulate CLEC4C
    • QuantiTect SYBR Green Assays in human,mouse,rat
    • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
    • QuantiFast Probe-based Assays in human,mouse,rat
    • Predesigned siRNA for gene silencing in human,mouse,rat for CLEC4C
    • Block miRNA regulation of CLEC4C using miScript Target Protectors

    Sources for CLEC4C Gene

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