CLEC9A Gene
protein-coding GIFtS: 40
GCID: GC12P010183
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C-type lectin domain family 9, member A
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Aliases
for CLEC9A gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| C-Type Lectin Domain Family 9, Member A1 2 | | HEEE93411 2 | | UNQ93411 2 | | DNGR12 5 | | C-Type Lectin Domain Family 9 Member A2 |
Export aliases for CLEC9A gene to outside databasesPrevious GC identifers: GC12P010075 GC12P009926 |
Summaries
for CLEC9A gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for CLEC9A:
CLEC9A is a group V C-type lectin-like receptor (CTLR) that functions as an activation receptor and is expressed onmyeloid lineage cells (Huysamen et al., 2008 (PubMed 18408006)).(supplied by OMIM, Aug 2008)
UniProtKB/Swiss-Prot: CLC9A_HUMAN, Q6UXN8Function: Functions as an endocytic receptor on a small subset of myeloid cells specialized for the uptake andprocessing of material from dead cells. Recognizes filamentous form of actin in association with particularactin-binding domains of cytoskeletal proteins, including spectrin, exposed when cell membranes are damaged, andmediate the cross-presentation of dead-cell associated antigens in a Syk-dependent manner
|
Genomic Views
for CLEC9A gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000012.11 NC_018923.1 NT_009714.17
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the CLEC9A gene promoter:
AhR STAT1 Sox5 C/EBPbeta FOXD3 MyoD FOXJ2 (long isoform) Cart-1 FOXJ2 ITF-2
Other transcription factors
Search SABiosciences Chromatin IP Primers for CLEC9A
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CLEC9A |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 12p13.2 Ensembl cytogenetic band: 12p13.2 HGNC cytogenetic band: 12p13.31CLEC9A Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 12 GeneLoc Exon Structure GeneLoc location for GC12P010183: view genomic region
(about GC identifiers)
Start:
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10,183,276 bp from pter |
End:
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10,218,565 bp from pter |
Size:
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35,290 bases |
Orientation:
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plus strand |
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Proteins
for CLEC9A gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: CLC9A_HUMAN, Q6UXN8 (See
protein sequence)Recommended Name: C-type lectin domain family 9 member A Size: 241 amino acids; 27324 Da
Subunit: Homodimer
Subcellular location: Membrane; Single-pass type II membrane protein
1 PDB 3D structure from  and Proteopedia  for CLEC9A:3VPP (3D)
Secondary accessions: B0ZBM2Explore the universe of human proteins at neXtProt for CLEC9A: NX_Q6UXN8
Post-translational modifications:
N-glycosylated1
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q6UXN8
CLEC9A Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_997228.1
ENSEMBL proteins: ENSP00000348074
Human Recombinant Protein Products:
Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view): About this table
CLEC9A for ontologies About GeneDecksing
CLEC9A Antibody Products:
Assay Products for CLEC9A: |
Protein
Domains /
Families
for CLEC9A gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
CLEC9A for domains About GeneDecksing
4 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q6UXN8ProtoNet protein and cluster: Q6UXN8 UniProtKB/Swiss-Prot: CLC9A_HUMAN, Q6UXN8Similarity: Contains 1 C-type lectin domain |
Function
for CLEC9A gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Function Summary:
UniProtKB/Swiss-Prot: CLC9A_HUMAN, Q6UXN8Function: Functions as an endocytic receptor on a small subset of myeloid cells specialized for the uptake andprocessing of material from dead cells. Recognizes filamentous form of actin in association with particularactin-binding domains of cytoskeletal proteins, including spectrin, exposed when cell membranes are damaged, andmediate the cross-presentation of dead-cell associated antigens in a Syk-dependent manner
Clone
Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for CLEC9A (see all 3)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for CLEC9A
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
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In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CLEC9A |
Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0004872 | receptor activity |
-- | -- | | GO:0030246 | carbohydrate binding |
IEA | -- |
CLEC9A for ontologies About GeneDecksing
Animal Models:
Mouse knock-out Clec9atm1.1Kens for CLEC9A
1 MGI mutant phenotype (inferred from 4 alleles ) (MGI details for Clec9a):
CLEC9A for phenotypes About GeneDecksing
|
Pathways & Interactions
for CLEC9A gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for CLEC9A
Gene Ontology (GO): 2 biological process terms (GO ID links to tree view): About this table
CLEC9A for ontologies About GeneDecksing
|
Drugs & Compounds
for CLEC9A gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for CLEC9A
Search CenterWatch for drugs/clinical trials and news about CLEC9A / CLC9A
|
Transcripts
for CLEC9A gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for CLEC9A gene: NM_207345.2 Unigene Cluster for CLEC9A: C-type lectin domain family 9, member A Hs.531189 [show with all ESTs]Unigene Representative Sequence: AY3582653 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000355819(uc001qxa.3) ENST00000544751 ENST00000538482
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for CLEC9A (see all 3)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for CLEC9A
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: CLEC9A (NM_207345) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for CLEC9A | | | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat CLEC9A |
Additional cDNA sequence: AK307335.1 AY358265.1 EU339276.1 2 DOTS entries: DT.101956961 DT.204169 10 AceView cDNA sequences: BX115613 NM_207345 BU568744 AY358265 AI949415 D78845 R23980 H02323 R78471 H02425
GeneLoc Exon Structure
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Expression
for CLEC9A gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| CLEC9A expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: AAATTAGCAA
About this image
See CLEC9A Protein Expression from SPIRE MOPED and PaxDB
SOURCE GeneReport for Unigene cluster: Hs.531189
UniProtKB/Swiss-Prot: CLC9A_HUMAN, Q6UXN8Tissue specificity: In peripheral blood highly restricted on the surface of BDCA31(+) dendritic cells and on a smallsubset of CD14(+) and CD16(-) monocytes
SABiosciences Custom PCR Arrays for CLEC9A
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for CLEC9A
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat CLEC9A | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat CLEC9A | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat CLEC9A | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CLEC9A |
Orthologs
for CLEC9A gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of chordates.
Orthologs for CLEC9A gene from 1/7 species (see all 7) About this table
| Organism |
Taxonomic
classification |
Gene |
Description |
Human
Similarity |
Orthology
Type |
Details |
lizard
(Anolis carolinensis) |
Reptilia |
CLEC9A6 |
-- |
30(a) |
1 → many |
2(81818136-81823316) |
ENSEMBL Gene Tree for CLEC9A (if available)
TreeFam Gene Tree for CLEC9A (if available) |
Paralogs
for CLEC9A gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for CLEC9A gene
- OLR12 KLRC22 ENSG000002558192 CLEC12A2 KLRC32 CLEC1A2 KLRD12 KLRK12
- KLRC42 CLEC1B2 ENSG000002556412 CLEC7A2 KLRC12 CLEC12B2
2 SIMAP similar genes for CLEC9A using alignment to 1 protein entry: CLC9A_HUMAN:CLEC2B KLRD1
CLEC9A for paralogs About GeneDecksing
|
Genomic Variants
for CLEC9A gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 12 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for CLEC9A (10183276 - 10218565 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 1 variation for CLEC9A
1 Inversion: 59704 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing CLEC9A |
|
Disorders
/ Diseases
for CLEC9A gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
CLEC9A for disorders About GeneDecksing
OMIM gene information: 612252
OMIM disorders: --
3  diseases for CLEC9A: About MalaCardscerebral malaria cerebritis malaria
Export disorders for CLEC9A gene to outside databases
|
Publications
for CLEC9A gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for CLEC9A gene, integrated from 9 sources (see all 11):
(articles sorted by number of sources associating them with CLEC9A) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- The dendritic cell receptor Clec9A binds damaged cells via exposed actin filaments. (PubMed id 22483802)1, 2 Zhang J.G....Lahoud M.H. (2012)
- Tumor therapy in mice via antigen targeting to a novel, DC-restricted C-type lectin. (PubMed id 18497879)1, 2 Sancho D....Reis e Sousa C. (2008)
- CLEC9A Is a Novel Activation C-type Lectin-like Receptor Expressed on BDCA3+ Dendritic Cells and a Subset of Monocytes. (PubMed id 18408006)1, 2 Huysamen C.... Brown G.D. (2008)
- The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PubMed id 12975309)1, 2 Clark H.F.... Gray A.M. (2003)
- F-actin is an evolutionarily conserved damage-associat ed molecular pattern recognized by DNGR-1, a receptor for dead cells. (PubMed id 22483800)1 Ahrens S....Schulz O. (2012)
- The C-type lectin receptor CLEC9A mediates antigen upt ake and (cross-)presentation by human blood BDCA3+ myeloid dendritic cells. (PubMed id 22234694)1 Schreibelt G....de Vries I.J. (2012)
- DNGR-1 is a specific and universal marker of mouse and human Batf3-dependent dendritic cells in lymphoid and nonlymphoid tissues. (PubMed id 22442345)1 Poulin L.F....Reis e Sousa C. (2012)
- Targeting antigen to mouse dendritic cells via Clec9A induces potent CD4 T cell responses biased toward a follicular helper phenotyp e. (PubMed id 21677141)1 Lahoud M.H....Caminschi I. (2011)
- Characterization of human DNGR-1+ BDCA3+ leukocytes a s putative equivalents of mouse CD8alpha+ dendritic cells. (PubMed id 20479117)1 Poulin L.F....Reis e Sousa C. (2010)
- Identification of a dendritic cell receptor that coup les sensing of necrosis to immunity. (PubMed id 19219027)1 Sancho D....Reis e Sousa C. (2009)
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External Searches for CLEC9A gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing CLEC9A gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing CLEC9A gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing CLEC9A gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for CLEC9A | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for CLEC9A gene:
Search GeneIP for patents involving CLEC9A
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for CLEC9A gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
| | |  | Browse OriGene Antibodies | | OriGene shRNA RFP for CLEC9A | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for CLEC9A | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for CLEC9A | | | OriGene Protein Over-expression Lysate for CLEC9A | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for CLEC9A | | Browse 3'-UTR reporter clones for miRNA target validation | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for CLEC9A | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for CLEC9A | | | Browse OriGene GFP tagged cDNA clones in CMV expression vector | | Browse OriGene MicroRNA Expression Plasmids | | | Browse OriGene basic RS shRNAs | | Browse OriGene validated miRNA SYBR primer pairs | | | Browse OriGene full length recombinant human proteins expressed in human HEK293 cells | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling | | | OriGene Custom Antibody Services for CLEC9A | | OriGene Custom Protein Services for CLEC9A | | | OriGene Custom Immunoassay Development | | |
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat CLEC9A | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing CLEC9A | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CLEC9A | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat CLEC9A | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat CLEC9A | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat CLEC9A |
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| |  |  |  |  | | | | |
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 | | | CLEC9A Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CLEC9A |
|  |  |  | | | | ThermoFisher Antibodies for CLEC9A |
| | | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat CLEC9A |
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