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Aliases for CLEC4E Gene

Aliases for CLEC4E Gene

  • C-Type Lectin Domain Family 4 Member E 2 3 4 5
  • Macrophage-Inducible C-Type Lectin 2 3 4
  • C-Type (Calcium Dependent, Carbohydrate-Recognition Domain) Lectin, Superfamily Member 9 2 3
  • C-Type Lectin Superfamily Member 9 3 4
  • CLECSF9 3 4
  • MINCLE 3 4
  • C-Type Lectin Domain Family 4, Member E 2

External Ids for CLEC4E Gene

Previous HGNC Symbols for CLEC4E Gene

  • CLECSF9

Previous GeneCards Identifiers for CLEC4E Gene

  • GC12M008578
  • GC12M008685
  • GC12M008468

Summaries for CLEC4E Gene

Entrez Gene Summary for CLEC4E 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 II transmembrane protein is a downstream target of CCAAT/enhancer binding protein (C/EBP), beta (CEBPB) and may play a role in inflammation. Alternative splice variants have been described but their full-length sequence has not been determined. 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 CLEC4E Gene

CLEC4E (C-Type Lectin Domain Family 4 Member E) is a Protein Coding gene. Diseases associated with CLEC4E include Fungal Keratitis and Common Wart. Among its related pathways are Innate Immune System and C-type lectin receptor signaling pathway. Gene Ontology (GO) annotations related to this gene include carbohydrate binding. An important paralog of this gene is CLEC4C.

UniProtKB/Swiss-Prot for CLEC4E Gene

  • A calcium-dependent lectin that acts as a pattern recognition receptor of the innate immune system. Recognizes damage-associated molecular patterns (DAMPs) of abnormal self and pathogen-associated molecular patterns (PAMPs) of bacteria and fungi (PubMed:18509109, PubMed:23602766). The PAMPs notably include mycobacterial trehalose 6,6'-dimycolate (TDM), a cell wall glycolipid with potent adjuvant immunomodulatory functions (PubMed:23602766, PubMed:24101491). Interacts with signaling adapter Fc receptor gamma chain/FCER1G to form a functional complex in myeloid cells. Binding of mycobacterial trehalose 6,6'-dimycolate (TDM) to this receptor complex leads to phosphorylation of the immunoreceptor tyrosine-based activation motif (ITAM) of FCER1G, triggering activation of SYK, CARD9 and NF-kappa-B, consequently driving maturation of antigen-presenting cells and shaping antigen-specific priming of T-cells toward effector T-helper 1 and T-helper 17 cell subtypes. Specifically recognizes alpha-mannose residues on pathogenic fungi of the genus Malassezia and mediates macrophage activation. Through recognition of DAMPs released upon nonhomeostatic cell death, enables immune sensing of damaged self and promotes inflammatory cell infiltration into the damaged tissue (By similarity).

Additional gene information for CLEC4E Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CLEC4E Gene

Genomics for CLEC4E Gene

GeneHancer (GH) Regulatory Elements for CLEC4E Gene

Promoters and enhancers for CLEC4E Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH12J008539 Promoter 1 EPDnew Ensembl 619.5 +0.5 462 2.2 CLEC4E LINC00937 GC12P008530
GH12J008492 Enhancer 1.1 FANTOM5 Ensembl ENCODE 24.6 +47.4 47362 6.8 CREM IKZF1 PKNOX1 IKZF2 RELA CBFB DPF2 RUNX3 BCL11A JUNB CLEC4E CLEC4D CLEC6A CLEC4A LINC00937 NECAP1 KLRG1 C3AR1 M6PR FOXJ2
GH12J008544 Promoter/Enhancer 1.1 Ensembl ENCODE 16.7 -3.5 -3510 0.3 CTCF RAD21 ZNF143 TRIM22 ZNF692 RUNX3 BCLAF1 RFX5 SMC3 ZFP69B CLEC4E A2ML1 A2ML1-AS2 LOC105369645
GH12J008617 Enhancer 1 FANTOM5 ENCODE 17.7 -77.9 -77931 2.7 ELF1 MLLT1 IKZF1 IKZF2 TRIM22 PKNOX1 CEBPB JUN SP1 DPF2 CLEC4E A2ML1 A2ML1-AS2 CLEC6A M6PR CLEC4A CLEC4D GC12P008623 AICDA
GH12J008563 Enhancer 0.7 Ensembl ENCODE 21 -24.8 -24838 6.4 RFX1 CTCF NFIC ZNF143 SIN3A ENSG00000255801 LOC105369645 CLEC4E ENSG00000252727 ENSG00000255829 MFAP5 RNU6-275P GC12M008563
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CLEC4E on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CLEC4E gene promoter:
  • aMEF-2
  • AREB6
  • Cart-1
  • MEF-2A
  • Pax-4a
  • POU2F1
  • POU2F1a
  • PPAR-gamma1
  • PPAR-gamma2
  • SRY

Genomic Locations for CLEC4E Gene

Genomic Locations for CLEC4E Gene
chr12:8,533,305-8,540,963
(GRCh38/hg38)
Size:
7,659 bases
Orientation:
Minus strand
chr12:8,685,901-8,693,559
(GRCh37/hg19)
Size:
7,659 bases
Orientation:
Minus strand

Genomic View for CLEC4E Gene

Genes around CLEC4E on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CLEC4E Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CLEC4E Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CLEC4E Gene

Proteins for CLEC4E Gene

  • Protein details for CLEC4E Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9ULY5-CLC4E_HUMAN
    Recommended name:
    C-type lectin domain family 4 member E
    Protein Accession:
    Q9ULY5
    Secondary Accessions:
    • B2R6Q6

    Protein attributes for CLEC4E Gene

    Size:
    219 amino acids
    Molecular mass:
    25073 Da
    Quaternary structure:
    • Monomer and homodimer (PubMed:18509109). Interacts with signaling adapter Fc receptor gamma chain/FCER1G to form a functional complex; the interaction is direct (By similarity). Alternatively, acts as a bridge for interaction between CLEC4D and FCER1G. A heterodimer of CLEC4E and CLEC4D associates with FCER1G to form a functional complex (By similarity). Interacts with SAP130 nuclear protein that is released from necrotic cells; the interaction is direct (By similarity).

    Three dimensional structures from OCA and Proteopedia for CLEC4E Gene

neXtProt entry for CLEC4E Gene

Post-translational modifications for CLEC4E Gene

  • Glycosylation at isoforms=107 and isoforms=62
  • Modification sites at PhosphoSitePlus

Other Protein References for CLEC4E Gene

Antibody Products

  • Abcam antibodies for CLEC4E
  • Boster Bio Antibodies for CLEC4E

No data available for DME Specific Peptides for CLEC4E Gene

Domains & Families for CLEC4E Gene

Gene Families for CLEC4E Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted membrane proteins

Suggested Antigen Peptide Sequences for CLEC4E Gene

GenScript: Design optimal peptide antigens:
  • Macrophage-inducible C-type lectin (CLC4E_HUMAN)

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with CLEC4E: view

No data available for UniProtKB/Swiss-Prot for CLEC4E Gene

Function for CLEC4E Gene

Molecular function for CLEC4E Gene

UniProtKB/Swiss-Prot Function:
A calcium-dependent lectin that acts as a pattern recognition receptor of the innate immune system. Recognizes damage-associated molecular patterns (DAMPs) of abnormal self and pathogen-associated molecular patterns (PAMPs) of bacteria and fungi (PubMed:18509109, PubMed:23602766). The PAMPs notably include mycobacterial trehalose 6,6'-dimycolate (TDM), a cell wall glycolipid with potent adjuvant immunomodulatory functions (PubMed:23602766, PubMed:24101491). Interacts with signaling adapter Fc receptor gamma chain/FCER1G to form a functional complex in myeloid cells. Binding of mycobacterial trehalose 6,6'-dimycolate (TDM) to this receptor complex leads to phosphorylation of the immunoreceptor tyrosine-based activation motif (ITAM) of FCER1G, triggering activation of SYK, CARD9 and NF-kappa-B, consequently driving maturation of antigen-presenting cells and shaping antigen-specific priming of T-cells toward effector T-helper 1 and T-helper 17 cell subtypes. Specifically recognizes alpha-mannose residues on pathogenic fungi of the genus Malassezia and mediates macrophage activation. Through recognition of DAMPs released upon nonhomeostatic cell death, enables immune sensing of damaged self and promotes inflammatory cell infiltration into the damaged tissue (By similarity).

Phenotypes From GWAS Catalog for CLEC4E Gene

Gene Ontology (GO) - Molecular Function for CLEC4E Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IDA 24101491
GO:0030246 carbohydrate binding IEA,TAS --
GO:0038023 signaling receptor activity IEA --
GO:0038187 pattern recognition receptor activity IDA 24101491
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with CLEC4E: view
genes like me logo Genes that share phenotypes with CLEC4E: view

Animal Models for CLEC4E Gene

MGI Knock Outs for CLEC4E:

Animal Model Products

  • Taconic Biosciences Mouse Models for CLEC4E

CRISPR Products

Clone Products

  • Applied Biological Materials (abm): Clones for CLEC4E - Now 50% OFF >
  • * CLEC4E as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
  • * CLEC4E tags and reporters available: His, HA, Myc, Flag, GFP, RFP, Luciferase - Browse All

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CLEC4E Gene

Localization for CLEC4E Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLEC4E Gene

Membrane; Single-pass type II membrane protein.

Subcellular locations from

COMPARTMENTS
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 CLEC4E gene
Compartment Confidence
plasma membrane 4
extracellular 3
cytosol 2
nucleus 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for CLEC4E Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane TAS --
GO:0016020 membrane IEA,IDA 24101491
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with CLEC4E: view

Pathways & Interactions for CLEC4E Gene

genes like me logo Genes that share pathways with CLEC4E: view

Pathways by source for CLEC4E Gene

Gene Ontology (GO) - Biological Process for CLEC4E Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002221 pattern recognition receptor signaling pathway IMP 24101491
GO:0002223 stimulatory C-type lectin receptor signaling pathway TAS --
GO:0002292 T cell differentiation involved in immune response IEA --
GO:0002376 immune system process IEA --
GO:0006955 immune response IEA --
genes like me logo Genes that share ontologies with CLEC4E: view

No data available for SIGNOR curated interactions for CLEC4E Gene

Drugs & Compounds for CLEC4E Gene

(1) Drugs for CLEC4E Gene - From: DrugBank

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
cholesterol Approved, Investigational Pharma Agonist, Target, ligand 0
genes like me logo Genes that share compounds with CLEC4E: view

Transcripts for CLEC4E Gene

mRNA/cDNA for CLEC4E Gene

Unigene Clusters for CLEC4E Gene

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

CRISPR Products

Clone Products

  • Applied Biological Materials (abm): Clones for CLEC4E - Now 50% OFF >
  • * CLEC4E as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
  • * CLEC4E tags and reporters available: His, HA, Myc, Flag, GFP, RFP, Luciferase - Browse All

Alternative Splicing Database (ASD) splice patterns (SP) for CLEC4E Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b · 3c · 3d ^ 4 ^ 5 ^ 6a · 6b · 6c
SP1: - - -
SP2: - -
SP3: - - -
SP4: - - -
SP5:

Relevant External Links for CLEC4E Gene

GeneLoc Exon Structure for
CLEC4E
ECgene alternative splicing isoforms for
CLEC4E

Expression for CLEC4E Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CLEC4E Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CLEC4E Gene

This gene is overexpressed in Whole Blood (x41.9).

NURSA nuclear receptor signaling pathways regulating expression of CLEC4E Gene:

CLEC4E

SOURCE GeneReport for Unigene cluster for CLEC4E Gene:

Hs.236516

mRNA Expression by UniProt/SwissProt for CLEC4E Gene:

Q9ULY5-CLC4E_HUMAN
Tissue specificity: Expressed in monocytes and macrophages.

Evidence on tissue expression from TISSUES for CLEC4E Gene

  • Kidney(4.1)
  • Spleen(2.4)
  • Blood(2)
  • Bone marrow(2)
genes like me logo Genes that share expression patterns with CLEC4E: view

No data available for Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for CLEC4E Gene

Orthologs for CLEC4E Gene

This gene was present in the common ancestor of chordates.

Orthologs for CLEC4E Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CLEC4E 35 34
  • 99.54 (n)
OneToOne
cow
(Bos Taurus)
Mammalia CLEC4E 35 34
  • 84.47 (n)
OneToOne
dog
(Canis familiaris)
Mammalia CLEC4E 35 34
  • 82.94 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Clec4e 34
  • 79.91 (n)
mouse
(Mus musculus)
Mammalia Clec4e 17 35 34
  • 79.5 (n)
oppossum
(Monodelphis domestica)
Mammalia CLEC4E 35
  • 59 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CLEC4E 35
  • 42 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii si:ch211-154o6.6 34
  • 53.08 (n)
Species where no ortholog for CLEC4E 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)
  • 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)

Evolution for CLEC4E Gene

ENSEMBL:
Gene Tree for CLEC4E (if available)
TreeFam:
Gene Tree for CLEC4E (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CLEC4E: view image

Paralogs for CLEC4E Gene

(16) SIMAP similar genes for CLEC4E Gene using alignment to 4 proteins:

  • CLC4E_HUMAN
  • F5H5X7_HUMAN
  • F8WFA1_HUMAN
  • H0YGH9_HUMAN
genes like me logo Genes that share paralogs with CLEC4E: view

Variants for CLEC4E Gene

Sequence variations from dbSNP and Humsavar for CLEC4E Gene

SNP ID Clin Chr 12 pos Variation AA Info Type
rs1000660004 -- 8,534,389(-) T/C 3_prime_UTR_variant, downstream_transcript_variant, genic_downstream_transcript_variant
rs1001076714 -- 8,539,920(-) A/G coding_sequence_variant, intron_variant, missense_variant
rs1001168363 -- 8,540,273(-) C/T intron_variant
rs1001915164 -- 8,535,685(-) A/G intron_variant
rs1002050779 -- 8,535,437(-) A/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for CLEC4E Gene

Variant ID Type Subtype PubMed ID
dgv1362n100 CNV gain 25217958
nsv1051530 CNV gain 25217958
nsv557342 CNV loss 21841781

Variation tolerance for CLEC4E Gene

Residual Variation Intolerance Score: 67.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.28; 25.47% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CLEC4E Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CLEC4E

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CLEC4E Gene

Disorders for CLEC4E Gene

MalaCards: The human disease database

(2) MalaCards diseases for CLEC4E Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
fungal keratitis
  • keratomycosis
common wart
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for CLEC4E

genes like me logo Genes that share disorders with CLEC4E: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CLEC4E Gene

Publications for CLEC4E Gene

  1. Human and mouse macrophage-inducible C-type lectin (Mincle) bind Candida albicans. (PMID: 18509109) Bugarcic A … Blanchard H (Glycobiology 2008) 3 4 23 58
  2. A novel LPS-inducible C-type lectin is a transcriptional target of NF-IL6 in macrophages. (PMID: 10528209) Matsumoto M … Akira S (Journal of immunology (Baltimore, Md. : 1950) 1999) 2 3 4 58
  3. 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 4 58
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  5. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark HF … Gray A (Genome research 2003) 3 4 58

Products for CLEC4E Gene

Sources for CLEC4E Gene

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