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Aliases for CLEC9A Gene

Aliases for CLEC9A Gene

  • C-Type Lectin Domain Containing 9A 2 3
  • C-Type Lectin Domain Family 9 Member A 2 3 5
  • C-Type Lectin Domain Family 9, Member A 2
  • HEEE9341 3
  • UNQ9341 3
  • DNGR-1 3
  • CD370 3
  • DNGR1 3

External Ids for CLEC9A Gene

Previous GeneCards Identifiers for CLEC9A Gene

  • GC12P010075
  • GC12P010183
  • GC12P009926

Summaries for CLEC9A Gene

Entrez Gene Summary for CLEC9A Gene

  • 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]

GeneCards Summary for CLEC9A Gene

CLEC9A (C-Type Lectin Domain Containing 9A) is a Protein Coding gene. Among its related pathways are Dendritic Cells Developmental Lineage Pathway. GO annotations related to this gene include carbohydrate binding. An important paralog of this gene is OLR1.

UniProtKB/Swiss-Prot for CLEC9A Gene

  • Functions as an endocytic receptor on a small subset of myeloid cells specialized for the uptake and processing of material from dead cells. Recognizes filamentous form of actin in association with particular actin-binding domains of cytoskeletal proteins, including spectrin, exposed when cell membranes are damaged, and mediate the cross-presentation of dead-cell associated antigens in a Syk-dependent manner.

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CLEC9A Gene

Genomics for CLEC9A Gene

Regulatory Elements for CLEC9A Gene

Enhancers for CLEC9A Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH12G009948 1.2 Ensembl ENCODE dbSUPER 10 -81.7 -81728 1.1 PKNOX1 BMI1 FEZF1 ARID3A ZFHX2 CBX5 ETV6 RELB IKZF2 RFX1 CLEC12A CLEC12B CLEC1B CLEC7A LOC102724020 CLEC9A LINC02470
GH12G010152 1.1 Ensembl ENCODE 10 +123.0 123035 1.8 ZNF2 ZNF48 RAD21 YY1 GLIS2 ZNF143 FOS DEK ZNF202 ZNF654 GABARAPL1 ENSG00000255958 LOC102724020 CLEC9A OLR1 KLRA1P TMEM52B CLEC7A
GH12G009947 0.8 ENCODE dbSUPER 10 -82.8 -82821 0.1 IKZF1 JUNB DPF2 SPI1 CLEC12B CLEC1B CLEC7A LOC102724020 CLEC9A CLEC12A LINC02470
GH12G009940 0.6 dbSUPER 10.6 -90.0 -89983 1.3 CTCF RNF2 HLF SMC3 PRDM1 RAD21 CLEC7A KLRF1 LOC102724020 CLEC9A ENSG00000255958 GABARAPL1 LINC02470 CLEC2A
GH12G009991 0.5 Ensembl dbSUPER 10.5 -38.5 -38477 0.8 CLEC7A CLEC9A LOC102724020 CLEC12B CLEC12A-AS1
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around CLEC9A on UCSC Golden Path with GeneCards custom track

Genomic Location for CLEC9A Gene

Chromosome:
12
Start:
10,030,677 bp from pter
End:
10,066,030 bp from pter
Size:
35,354 bases
Orientation:
Plus strand

Genomic View for CLEC9A Gene

Genes around CLEC9A on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CLEC9A Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CLEC9A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CLEC9A Gene

Proteins for CLEC9A Gene

  • Protein details for CLEC9A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6UXN8-CLC9A_HUMAN
    Recommended name:
    C-type lectin domain family 9 member A
    Protein Accession:
    Q6UXN8
    Secondary Accessions:
    • B0ZBM2

    Protein attributes for CLEC9A Gene

    Size:
    241 amino acids
    Molecular mass:
    27324 Da
    Quaternary structure:
    • Homodimer.

    Three dimensional structures from OCA and Proteopedia for CLEC9A Gene

neXtProt entry for CLEC9A Gene

Post-translational modifications for CLEC9A Gene

Other Protein References for CLEC9A Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for CLEC9A Gene

Domains & Families for CLEC9A Gene

Gene Families for CLEC9A Gene

Suggested Antigen Peptide Sequences for CLEC9A Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with CLEC9A: view

No data available for UniProtKB/Swiss-Prot for CLEC9A Gene

Function for CLEC9A Gene

Molecular function for CLEC9A Gene

UniProtKB/Swiss-Prot Function:
Functions as an endocytic receptor on a small subset of myeloid cells specialized for the uptake and processing of material from dead cells. Recognizes filamentous form of actin in association with particular actin-binding domains of cytoskeletal proteins, including spectrin, exposed when cell membranes are damaged, and mediate the cross-presentation of dead-cell associated antigens in a Syk-dependent manner.

Gene Ontology (GO) - Molecular Function for CLEC9A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0030246 carbohydrate binding IEA --
genes like me logo Genes that share ontologies with CLEC9A: view

Phenotypes for CLEC9A Gene

genes like me logo Genes that share phenotypes with CLEC9A: view

Animal Models for CLEC9A Gene

MGI Knock Outs for CLEC9A:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for CLEC9A Gene

Localization for CLEC9A Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLEC9A Gene

Membrane; Single-pass type II membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CLEC9A gene
Compartment Confidence
plasma membrane 3
cytoskeleton 1

Gene Ontology (GO) - Cellular Components for CLEC9A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0009986 cell surface IDA 18408006
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with CLEC9A: view

Pathways & Interactions for CLEC9A Gene

genes like me logo Genes that share pathways with CLEC9A: view

Pathways by source for CLEC9A Gene

1 R&D Systems pathway for CLEC9A Gene

Gene Ontology (GO) - Biological Process for CLEC9A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006898 receptor-mediated endocytosis IDA 18408006
GO:0050715 positive regulation of cytokine secretion IDA 18408006
genes like me logo Genes that share ontologies with CLEC9A: view

No data available for SIGNOR curated interactions for CLEC9A Gene

Drugs & Compounds for CLEC9A Gene

No Compound Related Data Available

Transcripts for CLEC9A Gene

mRNA/cDNA for CLEC9A Gene

(1) REFSEQ mRNAs :
(3) Additional mRNA sequences :
(10) Selected AceView cDNA sequences:
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for CLEC9A Gene

C-type lectin domain family 9, member A:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for CLEC9A Gene

No ASD Table

Relevant External Links for CLEC9A Gene

GeneLoc Exon Structure for
CLEC9A
ECgene alternative splicing isoforms for
CLEC9A

Expression for CLEC9A Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CLEC9A Gene

mRNA differential expression in normal tissues according to GTEx for CLEC9A Gene

This gene is overexpressed in Brain - Spinal cord (cervical c-1) (x9.1), Brain - Substantia nigra (x5.8), Brain - Hypothalamus (x4.2), and Testis (x4.0).

Protein differential expression in normal tissues from HIPED for CLEC9A Gene

This gene is overexpressed in Spleen (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for CLEC9A Gene



Protein tissue co-expression partners for CLEC9A Gene

NURSA nuclear receptor signaling pathways regulating expression of CLEC9A Gene:

CLEC9A

SOURCE GeneReport for Unigene cluster for CLEC9A Gene:

Hs.531189

mRNA Expression by UniProt/SwissProt for CLEC9A Gene:

Q6UXN8-CLC9A_HUMAN
Tissue specificity: In peripheral blood highly restricted on the surface of BDCA31(+) dendritic cells and on a small subset of CD14(+) and CD16(-) monocytes.

Evidence on tissue expression from TISSUES for CLEC9A Gene

  • Lymph node(2.6)
  • Spleen(2.5)
genes like me logo Genes that share expression patterns with CLEC9A: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and Phenotype-based relationships between genes and organs from Gene ORGANizer for CLEC9A Gene

Orthologs for CLEC9A Gene

This gene was present in the common ancestor of chordates.

Orthologs for CLEC9A Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CLEC9A 34 35
  • 99.17 (n)
dog
(Canis familiaris)
Mammalia CLEC9A 34 35
  • 81.39 (n)
cow
(Bos Taurus)
Mammalia LOC616060 34
  • 79.67 (n)
CLEC9A 35
  • 63 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Clec9a 34
  • 74 (n)
mouse
(Mus musculus)
Mammalia Clec9a 34 16 35
  • 71.99 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia CLEC9A 35
  • 32 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 31 (a)
OneToMany
Species where no ortholog for CLEC9A was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for CLEC9A Gene

ENSEMBL:
Gene Tree for CLEC9A (if available)
TreeFam:
Gene Tree for CLEC9A (if available)

Paralogs for CLEC9A Gene

Paralogs for CLEC9A Gene

(2) SIMAP similar genes for CLEC9A Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with CLEC9A: view

Variants for CLEC9A Gene

Sequence variations from dbSNP and Humsavar for CLEC9A Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type
rs1000005569 -- 10,063,685(+) TGAAA(C/T)GTTTA intron-variant
rs1000160675 -- 10,030,568(+) TTTAC(A/C/T)GGGCC nc-transcript-variant, upstream-variant-2KB
rs1000406193 -- 10,037,905(+) AGAAC(A/G)TGGGC intron-variant
rs1000437511 -- 10,037,646(+) ACGGG(A/G)AGACC intron-variant
rs1000649856 -- 10,062,514(+) TTTAT(G/T)TTCTT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for CLEC9A Gene

Variant ID Type Subtype PubMed ID
esv9698 OTHER inversion 19470904
nsv524870 CNV gain 19592680

Variation tolerance for CLEC9A Gene

Residual Variation Intolerance Score: 57.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.80; 16.76% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CLEC9A Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CLEC9A

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CLEC9A Gene

Disorders for CLEC9A Gene

Relevant External Links for CLEC9A

Genetic Association Database (GAD)
CLEC9A
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CLEC9A

No disorders were found for CLEC9A Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CLEC9A Gene

Publications for CLEC9A Gene

  1. The dendritic cell receptor Clec9A binds damaged cells via exposed actin filaments. (PMID: 22483802) Zhang J.G. … Lahoud M.H. (Immunity 2012) 3 4 64
  2. CLEC9A is a novel activation C-type lectin-like receptor expressed on BDCA3+ dendritic cells and a subset of monocytes. (PMID: 18408006) Huysamen C. … Brown G.D. (J. Biol. Chem. 2008) 3 4 64
  3. Tumor therapy in mice via antigen targeting to a novel, DC-restricted C-type lectin. (PMID: 18497879) Sancho D. … Reis e Sousa C. (J. Clin. Invest. 2008) 3 4 64
  4. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark H.F. … Gray A.M. (Genome Res. 2003) 3 4 64
  5. BDCA3(+)CLEC9A(+) human dendritic cell function and development. (PMID: 24910448) van der Aa E. … Woltman A.M. (Semin. Cell Dev. Biol. 2015) 3 64

Products for CLEC9A Gene

Sources for CLEC9A Gene

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