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CLEC4G C-type lectin domain family 4 member G [ Homo sapiens (human) ]

Gene ID: 339390, updated on 7-Jun-2020

Summary

Official Symbol
CLEC4Gprovided by HGNC
Official Full Name
C-type lectin domain family 4 member Gprovided by HGNC
Primary source
HGNC:HGNC:24591
See related
Ensembl:ENSG00000182566 MIM:616256
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
LP2698; UNQ431; DTTR431; LSECtin
Summary
This gene encodes a glycan-binding receptor and member of the C-type lectin family which plays a role in the immune response. C-type lectin receptors are pattern recognition receptors located on immune cells that play a role in the recognition and uptake of both self and non-self glycoproteins as well as mediating cell adhesion, glycoprotein clearance, and cell signaling functions. This gene's protein binds complex-type N-glycans of the viral envelope proteins of Ebola virus, West Nile filovirus, and SARS coronavirus, but not HIV or hepatitis C virus. In mouse, this protein has been shown to recognize activated T-cells and to negatively regulate T-cell receptor-mediated signalling. It also acts as a novel, liver-specific regulator of NK cell-mediated immunity in mouse. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Apr 2020]
Expression
Biased expression in liver (RPKM 17.2), lymph node (RPKM 6.5) and 4 other tissues See more
Orthologs

Genomic context

See CLEC4G in Genome Data Viewer
Location:
19p13.2
Exon count:
9
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 19 NC_000019.10 (7728957..7732171, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (7793843..7797057, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene Fc fragment of IgE receptor II Neighboring gene uncharacterized LOC105372262 Neighboring gene CLEC4G promoter region Neighboring gene zinc finger CCCH-type, RNA binding motif and serine/arginine rich 2 pseudogene Neighboring gene CD209 molecule Neighboring gene CD209 promoter region Neighboring gene Sharpr-MPRA regulatory region 7484

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?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env LSECtin binds to soluble human immunodeficiency virus type-1 (HIV-1) GP120 PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
polysaccharide binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
virus receptor activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
negative regulation of T cell mediated immunity IEA
Inferred from Electronic Annotation
more info
 
negative regulation of T cell proliferation IEA
Inferred from Electronic Annotation
more info
 
regulation of immune response TAS
Traceable Author Statement
more info
 
viral entry into host cell IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
plasma membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
C-type lectin domain family 4 member G
Names
C-type lectin superfamily 4, member G
liver and lymph node sinusoidal endothelial cell 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.

Genomic

  1. NG_030321.1 RefSeqGene

    Range
    5001..8215
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001244856.1NP_001231785.1  C-type lectin domain family 4 member G isoform 2

    See identical proteins and their annotated locations for NP_001231785.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the 5' coding region, compared to variant 1. This results in a shorter protein (isoform 2), compared to isoform 1.
    Source sequence(s)
    AY203939, AY423706, BC143309
    UniProtKB/TrEMBL
    B7ZKQ2, Q08G24, Q6XYD1
    Conserved Domains (1) summary
    cl02432
    Location:153277
    CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
  2. NM_198492.3NP_940894.1  C-type lectin domain family 4 member G isoform 1

    See identical proteins and their annotated locations for NP_940894.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AY203939, AY423706
    Consensus CDS
    CCDS12185.1
    UniProtKB/Swiss-Prot
    Q6UXB4
    UniProtKB/TrEMBL
    Q08G24, Q6XYD1
    Related
    ENSP00000327599.4, ENST00000328853.9
    Conserved Domains (2) summary
    pfam08614
    Location:63156
    ATG16; Autophagy protein 16 (ATG16)
    cl02432
    Location:165289
    CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain

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_000019.10 Reference GRCh38.p13 Primary Assembly

    Range
    7728957..7732171 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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