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CLEC9A C-type lectin domain containing 9A [ Homo sapiens (human) ]

Gene ID: 283420, updated on 10-Dec-2024

Summary

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Official Symbol
CLEC9Aprovided by HGNC
Official Full Name
C-type lectin domain containing 9Aprovided by HGNC
Primary source
HGNC:HGNC:26705
See related
Ensembl:ENSG00000197992 MIM:612252; AllianceGenome:HGNC:26705
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
CD370; DNGR1; DNGR-1; UNQ9341
Summary
CLEC9A is a group V C-type lectin-like receptor (CTLR) that functions as an activation receptor and is expressed on myeloid lineage cells (Huysamen et al., 2008 [PubMed 18408006]).[supplied by OMIM, Aug 2008]
Expression
Broad expression in lymph node (RPKM 3.7), spleen (RPKM 2.7) and 16 other tissues See more
Orthologs
mouse all
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Genomic context

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See CLEC9A in Genome Data Viewer
Location:
12p13.2
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (10030682..10066031)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (9917091..9952444)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (10183281..10218630)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene C-type lectin domain family 12 member A Neighboring gene C-type lectin domain family 1 member B Neighboring gene uncharacterized LOC102724020 Neighboring gene C-type lectin domain family 12 member B Neighboring gene C-type lectin domain family 1 member B pseudogene Neighboring gene C-type lectin domain family 1 member A Neighboring gene RN7SK pseudogene 161 Neighboring gene heterogeneous nuclear ribonucleoprotein A/B pseudogene 1

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. Expression of clec9a in the oral cancer microenvironment. A preliminary immunohistochemical pilot study. Peña-Cardelles JF, et al. Med Oral Patol Oral Cir Bucal, 2021 Sep 1. PMID 34415004, Free PMC Article
  2. CLEC9A modulates macrophage-mediated neutrophil recruitment in response to heat-killed Mycobacterium tuberculosis H37Ra. Cheng AC, et al. PLoS One, 2017. PMID 29065139, Free PMC Article
  3. A novel peptide targeting Clec9a on dendritic cell for cancer immunotherapy. Yan Z, et al. Oncotarget, 2016 Jun 28. PMID 27250027, Free PMC Article
  4. Increased expression of Clec9A on cDC1s associated with cytotoxic CD8(+) T cell response in COPD. Yan L, et al. Clin Immunol, 2022 Sep. PMID 35901921
  5. The C-type lectin receptor CLEC9A mediates antigen uptake and (cross-)presentation by human blood BDCA3+ myeloid dendritic cells. Schreibelt G, et al. Blood, 2012 Mar 8. PMID 22234694

See all (22) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Increased expression of Clec9A on cDC1s associated with cytotoxic CD8(+) T cell response in COPD.
    Title: Increased expression of Clec9A on cDC1s associated with cytotoxic CD8(+) T cell response in COPD.
  2. Secreted gelsolin inhibits DNGR-1-dependent cross-presentation and cancer immunity.
    Title: Secreted gelsolin inhibits DNGR-1-dependent cross-presentation and cancer immunity.
  3. Expression of clec9a in the oral cancer microenvironment. A preliminary immunohistochemical pilot study.
    Title: Expression of clec9a in the oral cancer microenvironment. A preliminary immunohistochemical pilot study.
  4. The receptor DNGR-1 signals for phagosomal rupture to promote cross-presentation of dead-cell-associated antigens.
    Title: The receptor DNGR-1 signals for phagosomal rupture to promote cross-presentation of dead-cell-associated antigens.
  5. Clec9a is responsible for the antigen cross-presentation of dendritic cell subsets and may be a target of immunotherapy
    Title: A novel peptide targeting Clec9a on dendritic cell for cancer immunotherapy.
  6. findings demonstrate that CLEC9A is a specialized receptor that modulates the innate immune response when there is a mycobacterial infection
    Title: CLEC9A modulates macrophage-mediated neutrophil recruitment in response to heat-killed Mycobacterium tuberculosis H37Ra.
  7. Data indicate that blood dendritic cell antigen 3 BDCA3(+) and C-type lectin domain family 9, member A CLEC9A(+) dendritic cells (DC) are of major importance in the induction of anti-viral and anti-tumor immunity.
    Title: BDCA3(+)CLEC9A(+) human dendritic cell function and development.
  8. Activated dendritic cell subsets expressing CD141/CLEA9A/CD1c, likely recruited into the tubulointerstitium, are positioned to play a role in the development of fibrosis and, thus, progression to chronic kidney disease.
    Title: Increased tubulointerstitial recruitment of human CD141(hi) CLEC9A(+) and CD1c(+) myeloid dendritic cell subsets in renal fibrosis and chronic kidney disease.
  9. study showsn that the DNGR-1 ligand is preserved from yeast to man and corresponds to the F-actin component of the cellular cytoskeleton; identification of F-actin as a DNGR-1 ligand suggests that cytoskeletal exposure is a universal sign of cell damage that can be targeted by the innate immune system to initiate immunity
    Title: F-actin is an evolutionarily conserved damage-associated molecular pattern recognized by DNGR-1, a receptor for dead cells.
  10. High expression of DNGR-1 specifically and universally identifies a unique dendritic cells subset in mouse and humans.
    Title: DNGR-1 is a specific and universal marker of mouse and human Batf3-dependent dendritic cells in lymphoid and nonlymphoid tissues.
Submit: New GeneRIF Correction See all GeneRIFs (19)

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)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables carbohydrate binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in positive regulation of cytokine production IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in receptor-mediated endocytosis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in receptor-mediated endocytosis IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
is_active_in cell surface IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cell surface IDA
Inferred from Direct Assay
more info
 PubMed 
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
C-type lectin domain family 9 member A
Names
HEEE9341

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_207345.4 → NP_997228.1  C-type lectin domain family 9 member A

    See identical proteins and their annotated locations for NP_997228.1

    Status: VALIDATED

    Source sequence(s)
    AC024224, AY358265, DB090462, DB526089
    Consensus CDS
    CCDS8611.1
    UniProtKB/Swiss-Prot
    B0ZBM2, Q6UXN8
    Related
    ENSP00000348074.1, ENST00000355819.6
    Conserved Domains (1) summary
    cd03593
    Location:113 → 234
    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
    10030682..10066031
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    9917091..9952444
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6UXN8.1 GenPept UniProtKB/Swiss-Prot:Q6UXN8

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
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