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CLEC2A C-type lectin domain family 2 member A [ Homo sapiens (human) ]

Gene ID: 387836, updated on 27-Nov-2024

Summary

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Official Symbol
CLEC2Aprovided by HGNC
Official Full Name
C-type lectin domain family 2 member Aprovided by HGNC
Primary source
HGNC:HGNC:24191
See related
Ensembl:ENSG00000188393 MIM:612087; AllianceGenome:HGNC:24191
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
KACL; PILAR; UNQ5792; INPE5792
Summary
Enables protein homodimerization activity. Predicted to be involved in natural killer cell mediated cytotoxicity. Predicted to act upstream of or within several processes, including T cell receptor signaling pathway; regulation of actin filament polymerization; and regulation of interleukin-2 production. Located in plasma membrane. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Restricted expression toward skin (RPKM 6.7) See more
Orthologs
all
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Genomic context

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See CLEC2A in Genome Data Viewer
Location:
12p13.31
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (9877742..9932370, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (9767385..9818588, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (10051275..10084969, complement)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene killer cell lectin like receptor F1 Neighboring gene GCNA pseudogene 1 Neighboring gene C-type lectin domain family 2 member B Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr12:10051719-10052273 Neighboring gene MPRA-validated peak1567 silencer Neighboring gene killer cell lectin like receptor F2 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr12:10062769-10063968 Neighboring gene long intergenic non-protein coding RNA 2470 Neighboring gene CLEC12A antisense RNA 1 Neighboring gene uncharacterized LOC124902874 Neighboring gene C-type lectin domain family 12 member A

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. NK Cell and Fibroblast-Mediated Regulation of Skin Squamous Cell Carcinoma Invasion by CLEC2A Is Compromised in Xeroderma Pigmentosum. Gonçalves-Maia M, et al. J Invest Dermatol, 2020 Sep. PMID 32061658
  2. A Comprehensive Tyrosine Phosphoproteomic Analysis Reveals Novel Components of the Platelet CLEC-2 Signaling Cascade. Izquierdo I, et al. Thromb Haemost, 2020 Feb. PMID 31901221
  3. PDGF upregulates CLEC-2 to induce T regulatory cells. Agrawal S, et al. Oncotarget, 2015 Oct 6. PMID 26416420, Free PMC Article
  4. CLEC-2 expression is maintained on activated platelets and on platelet microparticles. Gitz E, et al. Blood, 2014 Oct 2. PMID 25150298, Free PMC Article
  5. CLEC2A: a novel, alternatively spliced and skin-associated member of the NKC-encoded AICL-CD69-LLT1 family. Spreu J, et al. Immunogenetics, 2007 Dec. PMID 18046548

See all (15) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. NK Cell and Fibroblast-Mediated Regulation of Skin Squamous Cell Carcinoma Invasion by CLEC2A Is Compromised in Xeroderma Pigmentosum.
    Title: NK Cell and Fibroblast-Mediated Regulation of Skin Squamous Cell Carcinoma Invasion by CLEC2A Is Compromised in Xeroderma Pigmentosum.
  2. A Comprehensive Tyrosine Phosphoproteomic Analysis Reveals Novel Components of the Platelet CLEC-2 Signaling Cascade.
    Title: A Comprehensive Tyrosine Phosphoproteomic Analysis Reveals Novel Components of the Platelet CLEC-2 Signaling Cascade.
  3. Review of C-type lectin-like receptor 2 and podoplanin interactions [review]
    Title: Physiologic and pathophysiologic roles of interaction between C-type lectin-like receptor 2 and podoplanin: partners from in utero to adulthood.
  4. PDGF upregulates the expression of CLEC-2 on dendritic cells to induce T regulatory cells.
    Title: PDGF upregulates CLEC-2 to induce T regulatory cells.
  5. Key residues at the membrane-distal surface of KACL, but not glycosylation, determine the functional interaction of the keratinocyte-specific C-type lectin-like receptor KACL with its high-affinity receptor NKp65
    Title: Key residues at the membrane-distal surface of KACL, but not glycosylation, determine the functional interaction of the keratinocyte-specific C-type lectin-like receptor KACL with its high-affinity receptor NKp65.
  6. CLEC-2, unlike platelet ITAM receptors, is not regulated by proteolysis and can be used to monitor platelet-derived microparticles
    Title: CLEC-2 expression is maintained on activated platelets and on platelet microparticles.
  7. Keratinocytes express KACL and are capable of stimulating NKp65-expressing cells in a KACL-dependent manner.
    Title: Interaction of C-type lectin-like receptors NKp65 and KACL facilitates dedicated immune recognition of human keratinocytes.
  8. CLEC-2 is the receptor for podoplanin, a sialoglycoprotein implicated in tumor-induced platelet aggregation and tumor metastasis[review]
    Title: Novel interactions in platelet biology: CLEC-2/podoplanin and laminin/GPVI.
  9. T-cell PILAR signaling through CD161 supports CD3 antibody-dependent and antigen-specific T-cell proliferation by increasing the expression of antiapoptotic Bcl-xL and induces secretion of T helper type 1 cytokines
    Title: PILAR is a novel modulator of human T-cell expansion.
Submit: New GeneRIF Correction

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)

HIV-1 interactions

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Replication interactions

Interaction Pubs
Knockdown of C-type lectin domain family 2, member A (CLEC2A) by siRNA inhibits HIV-1 replication in HeLa P4/R5 cells PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables carbohydrate binding IEA
Inferred from Electronic Annotation
more info
  
enables identical protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein homodimerization activity IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in natural killer cell mediated cytotoxicity TAS
Traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
is_active_in external side of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in plasma membrane IDA
Inferred from Direct Assay
more info
  

General protein information

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Preferred Names
C-type lectin domain family 2 member A
Names
keratinocyte-associated C-type lectin
proliferation-induced lymphocyte-associated receptor

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)

  1. NM_001130711.2 → NP_001124183.1  C-type lectin domain family 2 member A isoform 1

    See identical proteins and their annotated locations for NP_001124183.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    EF127467
    Consensus CDS
    CCDS44829.1
    UniProtKB/Swiss-Prot
    A5Y4G5, A9QKS2, A9QKS3, Q6UVW9
    Related
    ENSP00000396163.1, ENST00000455827.2
    Conserved Domains (1) summary
    cd03593
    Location:58 → 169
    CLECT_NK_receptors_like; C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs)

  2. NM_207375.3 → NP_997258.1  C-type lectin domain family 2 member A isoform 2

    See identical proteins and their annotated locations for NP_997258.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) contains an alternate 3' terminal exon, and it thus differs in the 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (2) has a distinct C-terminus and is shorter than isoform 1.
    Source sequence(s)
    AC091814, AY359126, EF127467
    Consensus CDS
    CCDS8606.1
    UniProtKB/Swiss-Prot
    Q6UVW9
    Related
    ENSP00000339732.4, ENST00000339766.8
    Conserved Domains (1) summary
    cd03593
    Location:58 → 137
    CLECT_NK_receptors_like; C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs)

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    9877742..9932370 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011520657.3 → XP_011518959.1  C-type lectin domain family 2 member A isoform X3

    Conserved Domains (1) summary
    cd03593
    Location:58 → 135
    CLECT_NK_receptors_like; C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs)

  2. XM_047428830.1 → XP_047284786.1  C-type lectin domain family 2 member A isoform X4

  3. XM_011520654.3 → XP_011518956.1  C-type lectin domain family 2 member A isoform X1

    Conserved Domains (1) summary
    cd03593
    Location:58 → 135
    CLECT_NK_receptors_like; C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs)

  4. XM_047428829.1 → XP_047284785.1  C-type lectin domain family 2 member A isoform X2

RNA

  1. XR_007063076.1 RNA Sequence

  2. XR_007063074.1 RNA Sequence

  3. XR_007063075.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    9767385..9818588 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054372024.1 → XP_054227999.1  C-type lectin domain family 2 member A isoform X3

  2. XM_054372025.1 → XP_054228000.1  C-type lectin domain family 2 member A isoform X4

  3. XM_054372023.1 → XP_054227998.1  C-type lectin domain family 2 member A isoform X2

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6UVW9.2 GenPept UniProtKB/Swiss-Prot:Q6UVW9

Gene LinkOut

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