CLEC4E C-type lectin domain family 4 member E [Homo sapiens (human)] - Gene

Summary

Official Symbol: CLEC4Eprovided by HGNC
Official Full Name: C-type lectin domain family 4 member Eprovided by HGNC
Primary source: HGNC:HGNC:14555
See related: Ensembl:ENSG00000166523 MIM:609962
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: MINCLE; CLECSF9
Summary: 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]
Expression: Biased expression in appendix (RPKM 10.3), spleen (RPKM 8.6) and 11 other tissues See more
Orthologs: mouse all

Genomic context

Location:: 12p13.31

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
109.20200228	current	GRCh38.p13 (GCF_000001405.39)	12	NC_000012.12 (8533305..8541327, complement)
105	previous assembly	GRCh37.p13 (GCF_000001405.25)	12	NC_000012.11 (8685901..8693558, complement)

Chromosome 12 - NC_000012.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Spontaneous labour is associated with up-regulated Mincle expression in the myometrium and fetal membranes. Mincle expression was also increased in fetal membranes and myometrium in the presence of pro-labour mediators.
Title: Expression and function of macrophage-inducible C-type lectin (Mincle) in inflammation driven parturition in fetal membranes and myometrium.
overview of the accumulated knowledge of the multi-task danger receptor Mincle from its discovery to the latest findings
Title: Immune Recognition of Pathogen-Derived Glycolipids Through Mincle.
variations at rs10841845 and rs10841847 of CLEC4E gene are associated with increased individual protection against Pulmonary tuberculosis
Title: Association between CLEC4E gene polymorphism of mincle and pulmonary tuberculosis infection in a northern Chinese population.
Mincle has the ability to survey mycolate-derived glycolipids from actinomycetes, distinguishing non-pathogenic (e.g. Rhodococcus spp.) and pathogenic (e.g. Mycobacterium tuberculosis) species on the basis of alpha-chain length.
Title: Lipid structure influences the ability of glucose monocorynomycolate to signal through Mincle.
No association was detected with any of the SNPs analysed and susceptibility to tuberculosis.
Title: Polymorphisms in the Pattern Recognition Receptor Mincle Gene (CLEC4E) and Association with Tuberculosis.
combination adjuvant systems demonstrate markedly different immune activation with age, with combined DC activation via Macrophage-inducible C-type lectin and TLR7/8 representing a novel approach to enhance the efficacy of early-life vaccines.
Title: Age-Specific Adjuvant Synergy: Dual TLR7/8 and Mincle Activation of Human Newborn Dendritic Cells Enables Th1 Polarization.
We here show that Mincle gene expression was induced in alveolar macrophages and neutrophils in bronchoalveolar lavage fluids of mice and patients with pneumococcal pneumonia
Title: C-type Lectin Mincle Recognizes Glucosyl-diacylglycerol of Streptococcus pneumoniae and Plays a Protective Role in Pneumococcal Pneumonia.
a nonredundant role for Clec4e in coordinating major biological pathways involved in atherosclerosis
Title: Necrotic Cell Sensor Clec4e Promotes a Proatherogenic Macrophage Phenotype Through Activation of the Unfolded Protein Response.
The expression of Mincle increases significantly during the early period of Aspergillus fumigatus infection, while expression of eight corresponding cytokines changes. Mincle, as a pattern recognition receptor, may play a role in the early innate immune response of the corneal resistance against fungus.
Title: The role of Mincle in innate immune to fungal keratitis.
CLEC4E expression is significantly upregulated in human masticatory mucosa during wound healing
Title: Human gingiva transcriptome during wound healing.

Submit: New GeneRIF Correction See all GeneRIFs (26)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Homologs of the CLEC4E gene: The CLEC4E gene is conserved in chimpanzee, Rhesus monkey, dog, cow, mouse, rat, and zebrafish.
Orthologs from Annotation Pipeline: 103 organisms have orthologs with human gene CLEC4E
Orthologs

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
calcium ion binding	IDA Inferred from Direct Assay more info	PubMed
carbohydrate binding	IEA Inferred from Electronic Annotation more info
pattern recognition receptor activity	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
Fc-gamma receptor signaling pathway	IEA Inferred from Electronic Annotation more info
T cell differentiation involved in immune response	IEA Inferred from Electronic Annotation more info
defense response to bacterium	IEA Inferred from Electronic Annotation more info
innate immune response	IEA Inferred from Electronic Annotation more info
pattern recognition receptor signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
positive regulation of cytokine secretion	IEA Inferred from Electronic Annotation more info
stimulatory C-type lectin receptor signaling pathway	TAS Traceable Author Statement more info

Component	Evidence Code	Pubs
integral component of membrane	IEA Inferred from Electronic Annotation more info
membrane	IDA Inferred from Direct Assay more info	PubMed
plasma membrane	TAS Traceable Author Statement more info

General protein information

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Preferred Names: C-type lectin domain family 4 member E

Names: C-type (calcium dependent, carbohydrate-recognition domain) lectin, superfamily member 9; C-type lectin superfamily member 9; macrophage-inducible C-type lectin

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_014358.4 → NP_055173.1 C-type lectin domain family 4 member E

See identical proteins and their annotated locations for NP_055173.1

Status: REVIEWED

Source sequence(s)

AB024718, AC092746, AK312671, DA669951

Consensus CDS

CCDS8594.1

UniProtKB/Swiss-Prot

Q9ULY5

Related

ENSP00000299663.3, ENST00000299663.8

Conserved Domains (1) summary

cd03590
Location:80 → 207

CLECT_DC-SIGN_like; C-type lectin-like domain (CTLD) of the type found in human dendritic cell (DC)-specific intercellular adhesion molecule 3-grabbing non-integrin (DC-SIGN) and the related receptor, DC-SIGN receptor (DC-SIGNR)

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

NC_000012.12 Reference GRCh38.p13 Primary Assembly

Range

8533305..8541327 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_011520614.3 → XP_011518916.1 C-type lectin domain family 4 member E isoform X1

Conserved Domains (1) summary

cd03590
Location:49 → 176

CLECT_DC-SIGN_like; C-type lectin-like domain (CTLD) of the type found in human dendritic cell (DC)-specific intercellular adhesion molecule 3-grabbing non-integrin (DC-SIGN) and the related receptor, DC-SIGN receptor (DC-SIGNR)
XM_011520615.1 → XP_011518917.1 C-type lectin domain family 4 member E isoform X2

UniProtKB/TrEMBL

F5H5X7

Related

ENSP00000443034.1, ENST00000545274.5

Conserved Domains (2) summary

cl02432
Location:80 → 162

CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain

cl21455
Location:42 → 91

P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases