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CLEC6A C-type lectin domain containing 6A [ Homo sapiens (human) ]

Gene ID: 93978, updated on 24-Nov-2020

Summary

Official Symbol
CLEC6Aprovided by HGNC
Official Full Name
C-type lectin domain containing 6Aprovided by HGNC
Primary source
HGNC:HGNC:14556
See related
Ensembl:ENSG00000205846 MIM:613579
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
CLEC4N; CLECSF10; dectin-2
Summary
The protein encoded by this gene is a type II membrane receptor with an extracellular C-type lectin-like domain fold. The extracellular portion binds structures with a high mannose content and has been shown to recognize several pathogens, including C. elegans, S. cerevisiae, M. tuberculosis, C. neoformans, and house dust mite. When stimulated, the encoded protein initiates signalling through the CARD9-Bcl10-Malt1 pathway, leading to the induction of cytokines. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Dec 2015]
Expression
Low expression observed in reference dataset See more
Orthologs

Genomic context

See CLEC6A in Genome Data Viewer
Location:
12p13.31
Exon count:
6
Annotation release Status Assembly Chr Location
109.20201120 current GRCh38.p13 (GCF_000001405.39) 12 NC_000012.12 (8455962..8478330)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (8608591..8630926)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene olfactory receptor family 7 subfamily E member 148 pseudogene Neighboring gene olfactory receptor family 7 subfamily E member 149 pseudogene Neighboring gene ribosomal protein L15 pseudogene 17 Neighboring gene RNA, U6 small nuclear 275, pseudogene Neighboring gene SPT4 homolog, DSIF elongation factor subunit pseudogene 2

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

General gene information

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
calcium ion binding IDA
Inferred from Direct Assay
more info
PubMed 
carbohydrate binding IDA
Inferred from Direct Assay
more info
PubMed 
carbohydrate binding ISS
Inferred from Sequence or Structural Similarity
more info
 
mannose binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
adaptive immune response IEA
Inferred from Electronic Annotation
more info
 
defense response to fungus ISS
Inferred from Sequence or Structural Similarity
more info
 
innate immune response ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of I-kappaB kinase/NF-kappaB signaling ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of cytokine production 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
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 6 member A
Names
C-type (calcium dependent, carbohydrate-recognition domain) lectin, superfamily member 10
C-type lectin superfamily member 10
DC-associated C-type lectin 2
dectin 2
dendritic cell-associated C-type lectin 2

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_001007033.2NP_001007034.1  C-type lectin domain family 6 member A isoform 1

    See identical proteins and their annotated locations for NP_001007034.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC092746, AC092865
    Consensus CDS
    CCDS31739.1
    UniProtKB/Swiss-Prot
    Q6EIG7
    Related
    ENSP00000371505.3, ENST00000382073.4
    Conserved Domains (1) summary
    cd03590
    Location:79204
    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. NM_001317999.2NP_001304928.1  C-type lectin domain family 6 member A isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1. This variant is supported by transcripts from the mouse ortholog Clec4n (GeneID 56620) and by PMID:15810886.
    Source sequence(s)
    AC092746, AC092865
    UniProtKB/Swiss-Prot
    Q6EIG7
    Conserved Domains (1) summary
    cd03590
    Location:49174
    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 109.20201120

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
    8455962..8478330
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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