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

Gene ID: 26253, updated on 17-Apr-2020

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

Genomic context

See CLEC4E in Genome Data Viewer
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_000012.12Genomic Context describing neighboring genes Neighboring gene SPT4 homolog, DSIF elongation factor subunit pseudogene 2 Neighboring gene C-type lectin domain family 4 member D Neighboring gene uncharacterized LOC105369645 Neighboring gene activation induced cytidine deaminase

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

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

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)

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)

  1. NM_014358.4NP_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:80207
    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

  1. NC_000012.12 Reference GRCh38.p13 Primary Assembly

    Range
    8533305..8541327 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

    Conserved Domains (1) summary
    cd03590
    Location:49176
    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)
  2. XM_011520615.1XP_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:80162
    CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
    cl21455
    Location:4291
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
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