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CLEC4D C-type lectin domain family 4 member D [ Homo sapiens (human) ]

Gene ID: 338339, updated on 7-Jun-2020

Summary

Official Symbol
CLEC4Dprovided by HGNC
Official Full Name
C-type lectin domain family 4 member Dprovided by HGNC
Primary source
HGNC:HGNC:14554
See related
Ensembl:ENSG00000166527 MIM:609964
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
MCL; MPCL; CD368; CLEC6; CLEC-6; CLECSF8; Dectin-3
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. 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 bone marrow (RPKM 17.6), appendix (RPKM 4.0) and 1 other tissue See more
Orthologs

Genomic context

See CLEC4D in Genome Data Viewer
Location:
12p13.31
Exon count:
7
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 12 NC_000012.12 (8513492..8522366)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (8666136..8674962)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene RNA, U6 small nuclear 275, pseudogene Neighboring gene SPT4 homolog, DSIF elongation factor subunit pseudogene 2 Neighboring gene C-type lectin domain family 4 member E Neighboring gene uncharacterized LOC105369645

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

Clone Names

  • MGC40078

Gene Ontology Provided by GOA

Function Evidence Code Pubs
carbohydrate binding IEA
Inferred from Electronic Annotation
more info
 
immunoglobulin receptor binding IEA
Inferred from Electronic Annotation
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
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
 
adaptive 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
 
neutrophil degranulation TAS
Traceable Author Statement
more info
 
positive regulation of myeloid dendritic cell activation ISS
Inferred from Sequence or Structural Similarity
more info
 
stimulatory C-type lectin receptor signaling pathway TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
ficolin-1-rich granule membrane TAS
Traceable Author Statement
more info
 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
plasma membrane TAS
Traceable Author Statement
more info
 
specific granule membrane TAS
Traceable Author Statement
more info
 
tertiary granule membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
C-type lectin domain family 4 member D
Names
C-type (calcium dependent, carbohydrate-recognition domain) lectin, superfamily member 8
C-type lectin receptor
C-type lectin superfamily member 8
C-type lectin-like receptor 6
Dectin 3
macrophage 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_080387.5NP_525126.2  C-type lectin domain family 4 member D

    See identical proteins and their annotated locations for NP_525126.2

    Status: REVIEWED

    Source sequence(s)
    AC092746, BC032313, BI909298
    Consensus CDS
    CCDS8593.1
    UniProtKB/Swiss-Prot
    Q8WXI8
    Related
    ENSP00000299665.2, ENST00000299665.3
    Conserved Domains (1) summary
    cd03590
    Location:84208
    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
    8513492..8522366
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011520632.2XP_011518934.1  C-type lectin domain family 4 member D isoform X1

    See identical proteins and their annotated locations for XP_011518934.1

    UniProtKB/Swiss-Prot
    Q8WXI8
    Conserved Domains (1) summary
    cd03590
    Location:84208
    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_011520633.2XP_011518935.1  C-type lectin domain family 4 member D isoform X2

    Related
    ENSP00000371496.2, ENST00000382064.6
    Conserved Domains (1) summary
    cl02432
    Location:84128
    CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
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