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Aliases for CLEC4A Gene

Aliases for CLEC4A Gene

  • C-Type Lectin Domain Family 4 Member A 2 3 5
  • C-Type (Calcium Dependent, Carbohydrate-Recognition Domain) Lectin, Superfamily Member 6 2 3
  • C-Type Lectin Domain Family 4, Member A 2 3
  • C-Type Lectin Superfamily Member 6 3 4
  • Dendritic Cell Immunoreceptor 3 4
  • Lectin-Like Immunoreceptor 3 4
  • C-Type Lectin DDB27 3 4
  • CLECSF6 3 4
  • DCIR 3 4
  • LLIR 3 4
  • HDCGC13P 3
  • CD367 3
  • DDB27 3

External Ids for CLEC4A Gene

Previous HGNC Symbols for CLEC4A Gene

  • CLECSF6

Previous GeneCards Identifiers for CLEC4A Gene

  • GC12P008168
  • GC12P008169
  • GC12P008170
  • GC12P008277
  • GC12P008087
  • GC12P008278

Summaries for CLEC4A Gene

Entrez Gene Summary for CLEC4A 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 inflammatory and immune response. Multiple transcript variants encoding distinct isoforms have been identified for this gene. 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 CLEC4A Gene

CLEC4A (C-Type Lectin Domain Family 4 Member A) is a Protein Coding gene. Among its related pathways are Immune System and CLEC7A (Dectin-1) signaling. GO annotations related to this gene include transmembrane signaling receptor activity and carbohydrate binding. An important paralog of this gene is CLEC6A.

UniProtKB/Swiss-Prot for CLEC4A Gene

  • May be involved in regulating immune reactivity. May play a role in modulating dendritic cells (DC) differentiation and/or maturation. May be involved via its ITIM motif (immunoreceptor tyrosine-based inhibitory motifs) in the inhibition of B-cell-receptor-mediated calcium mobilization and protein tyrosine phosphorylation.

Gene Wiki entry for CLEC4A Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CLEC4A Gene

Genomics for CLEC4A Gene

Regulatory Elements for CLEC4A Gene

Promoters for CLEC4A Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around CLEC4A on UCSC Golden Path with GeneCards custom track

Genomic Location for CLEC4A Gene

Chromosome:
12
Start:
8,123,632 bp from pter
End:
8,138,607 bp from pter
Size:
14,976 bases
Orientation:
Plus strand

Genomic View for CLEC4A Gene

Genes around CLEC4A on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CLEC4A Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CLEC4A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CLEC4A Gene

Proteins for CLEC4A Gene

  • Protein details for CLEC4A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9UMR7-CLC4A_HUMAN
    Recommended name:
    C-type lectin domain family 4 member A
    Protein Accession:
    Q9UMR7
    Secondary Accessions:
    • Q17R69
    • Q8WXW9
    • Q9H2Z9
    • Q9NS33
    • Q9UI34

    Protein attributes for CLEC4A Gene

    Size:
    237 amino acids
    Molecular mass:
    27512 Da
    Quaternary structure:
    • May interact with PTPN6 via its ITIM motif.
    SequenceCaution:
    • Sequence=AAL56016.1; Type=Frameshift; Positions=229; Evidence={ECO:0000305};

    Alternative splice isoforms for CLEC4A Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CLEC4A Gene

Proteomics data for CLEC4A Gene at MOPED

Post-translational modifications for CLEC4A Gene

  • Glycosylation at Asn 185
  • Modification sites at PhosphoSitePlus

Other Protein References for CLEC4A Gene

Antibody Products

No data available for DME Specific Peptides for CLEC4A Gene

Domains & Families for CLEC4A Gene

Gene Families for CLEC4A Gene

Suggested Antigen Peptide Sequences for CLEC4A Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9UMR7

UniProtKB/Swiss-Prot:

CLC4A_HUMAN :
  • Contains 1 copy of a cytoplasmic motif that is referred to as the immunoreceptor tyrosine-based inhibitor motif (ITIM). This motif is involved in modulation of cellular responses. The phosphorylated ITIM motif can bind the SH2 domain of several SH2-containing phosphatases.
Domain:
  • Contains 1 copy of a cytoplasmic motif that is referred to as the immunoreceptor tyrosine-based inhibitor motif (ITIM). This motif is involved in modulation of cellular responses. The phosphorylated ITIM motif can bind the SH2 domain of several SH2-containing phosphatases.
  • Contains 1 C-type lectin domain.
genes like me logo Genes that share domains with CLEC4A: view

Function for CLEC4A Gene

Molecular function for CLEC4A Gene

UniProtKB/Swiss-Prot Function:
May be involved in regulating immune reactivity. May play a role in modulating dendritic cells (DC) differentiation and/or maturation. May be involved via its ITIM motif (immunoreceptor tyrosine-based inhibitory motifs) in the inhibition of B-cell-receptor-mediated calcium mobilization and protein tyrosine phosphorylation.
UniProtKB/Swiss-Prot Induction:
Isoform 2 mRNA expression is up-regulated by agonists of neutrophils CSF2/GM-CSF, IL3/interleukin-3, IL4/interleukin-4 and IL13/interleukin-13.
genes like me logo Genes that share phenotypes with CLEC4A: view

Animal Models for CLEC4A Gene

MGI Knock Outs for CLEC4A:

Animal Model Products

CRISPR Products

miRNA for CLEC4A Gene

miRTarBase miRNAs that target CLEC4A

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CLEC4A Gene

Localization for CLEC4A Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLEC4A Gene

Membrane; Single-pass type II membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for CLEC4A Gene COMPARTMENTS Subcellular localization image for CLEC4A gene
Compartment Confidence
plasma membrane 5
cytosol 2
extracellular 2
golgi apparatus 1
lysosome 1

No data available for Gene Ontology (GO) - Cellular Components for CLEC4A Gene

Pathways & Interactions for CLEC4A Gene

genes like me logo Genes that share pathways with CLEC4A: view

Pathways by source for CLEC4A Gene

Interacting Proteins for CLEC4A Gene

STRING Interaction Network Preview (showing 1 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.ENSP00000229332%0d%0a9606.ENSP00000391592%0d%0a
Selected Interacting proteins: Q9UMR7-CLC4A_HUMAN ENSP00000229332 for CLEC4A Gene via I2D STRING

Gene Ontology (GO) - Biological Process for CLEC4A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002250 adaptive immune response IEA --
GO:0007166 cell surface receptor signaling pathway TAS 10438934
genes like me logo Genes that share ontologies with CLEC4A: view

No data available for SIGNOR curated interactions for CLEC4A Gene

Drugs & Compounds for CLEC4A Gene

(9) Drugs for CLEC4A Gene - From: Novoseek and HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
calcium Nutra 0

(15) Additional Compounds for CLEC4A Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with CLEC4A: view

Transcripts for CLEC4A Gene

Unigene Clusters for CLEC4A Gene

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

Alternative Splicing Database (ASD) splice patterns (SP) for CLEC4A Gene

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

Relevant External Links for CLEC4A Gene

GeneLoc Exon Structure for
CLEC4A
ECgene alternative splicing isoforms for
CLEC4A

Expression for CLEC4A Gene

mRNA expression in normal human tissues for CLEC4A Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CLEC4A Gene

This gene is overexpressed in Whole Blood (x25.5).

Protein differential expression in normal tissues from HIPED for CLEC4A Gene

This gene is overexpressed in Monocytes (34.7), Plasma (20.0), and Neutrophil (12.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for CLEC4A Gene



SOURCE GeneReport for Unigene cluster for CLEC4A Gene Hs.504657

mRNA Expression by UniProt/SwissProt for CLEC4A Gene

Q9UMR7-CLC4A_HUMAN
Tissue specificity: Expressed in dendritic cells, myeloid cells, B-cells and HL-60 cells (at protein level). TNF alpha, IL-1 alpha, and LPS, down-regulated expression at the surface of neutrophils (at protein level). Expressed preferentially in hematopoietic tissues. Expressed in peripheral blood leukocytes, neutrophils, moderate quantities in spleen, lymph node, and bone marrow, and at very low levels in thymus. Expressed in Ag-presenting cells (DC, monocytes, macrophages and B-cells), as well as on granulocytes. Expression was decreased in DC by signals inducing its maturation (e.g. CD40 ligand, LPS, and TNF alpha).
genes like me logo Genes that share expression patterns with CLEC4A: view

Primer Products

In Situ Assay Products

No data available for Protein tissue co-expression partners for CLEC4A Gene

Orthologs for CLEC4A Gene

This gene was present in the common ancestor of mammals.

Orthologs for CLEC4A Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia CLEC4A 35
  • 75.54 (n)
  • 62.23 (a)
CLEC4A 36
  • 60 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CLEC4A 35
  • 77.54 (n)
  • 63.83 (a)
mouse
(Mus musculus)
Mammalia Clec4a2 35
  • 70.07 (n)
  • 54.89 (a)
Clec4a2 16
Clec4a1 36
  • 51 (a)
OneToMany
Clec4a2 36
  • 49 (a)
OneToMany
Clec4a3 36
  • 49 (a)
OneToMany
Clec4a4 36
  • 51 (a)
OneToMany
Clec4b1 36
  • 45 (a)
OneToMany
Clec4b2 36
  • 44 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Clec4a 35
  • 72.08 (n)
  • 55.13 (a)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 42 (a)
OneToMany
chimpanzee
(Pan troglodytes)
Mammalia CLEC4A 36
  • 99 (a)
OneToOne
Species with no ortholog for CLEC4A:
  • 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 CLEC4A Gene

ENSEMBL:
Gene Tree for CLEC4A (if available)
TreeFam:
Gene Tree for CLEC4A (if available)

Paralogs for CLEC4A Gene

(5) SIMAP similar genes for CLEC4A Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with CLEC4A: view

Variants for CLEC4A Gene

Sequence variations from dbSNP and Humsavar for CLEC4A Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type
rs2024301 - 8,125,585(-) TTTTG(A/T)GAGGG intron-variant, upstream-variant-2KB, reference, missense
rs1133103 -- 8,138,189(+) TTGTG(C/T)TAAAT reference, synonymous-codon
rs1133104 -- 8,138,526(+) ACACA(G/T)GGAGA utr-variant-3-prime
rs1990476 -- 8,122,140(-) CTGAC(A/T)CTCCA upstream-variant-2KB
rs2015596 -- 8,122,530(-) CTGCG(C/T)GGATG upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for CLEC4A Gene

Variant ID Type Subtype PubMed ID
dgv455e1 CNV Complex 17122850
nsv428270 CNV Gain 18775914
dgv459e1 CNV Complex 17122850
dgv460e1 CNV Complex 17122850
dgv461e1 CNV Complex 17122850

Variation tolerance for CLEC4A Gene

Residual Variation Intolerance Score: 76.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.76; 33.29% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CLEC4A Gene

HapMap Linkage Disequilibrium report
CLEC4A

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CLEC4A Gene

Disorders for CLEC4A Gene

Relevant External Links for CLEC4A

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CLEC4A

No disorders were found for CLEC4A Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CLEC4A Gene

Publications for CLEC4A Gene

  1. APCs express DCIR, a novel C-type lectin surface receptor containing an immunoreceptor tyrosine-based inhibitory motif. (PMID: 10438934) Bates E.E.M. … Saeland S. (J. Immunol. 1999) 2 3 4 23 67
  2. Association of arthritis with a gene complex encoding C-type lectin-like receptors. (PMID: 17665455) Lorentzen J.C. … Fossum S. (Arthritis Rheum. 2007) 3 23
  3. The expression pattern of the ITIM-bearing lectin CLECSF6 in neutrophils suggests a key role in the control of inflammation. (PMID: 11994513) Richard M. … Beaulieu A.D. (J. Leukoc. Biol. 2002) 3 23
  4. Cloning and characterization of a novel ITIM containing lectin-like immunoreceptor LLIR and its two transmembrane region deletion variants. (PMID: 11178971) Huang X. … Cao X. (Biochem. Biophys. Res. Commun. 2001) 3 23
  5. DCIR interacts with ligands from both endogenous and pathogenic origin. (PMID: 24239607) Bloem K. … van Kooyk Y. (Immunol. Lett. 2014) 3

Products for CLEC4A Gene

Sources for CLEC4A Gene

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