Free for academic non-profit institutions. Other users need a Commercial license

CLEC1B Gene(Protein Coding)

C-Type Lectin Domain Family 1 Member B

GCID:
GC12M011910
GIFtS:
48
Genes Participants
UDN Logo

Aliases for CLEC1B Gene

Aliases for CLEC1B Gene

  • C-Type Lectin Domain Family 1 Member B 2 3 5
  • C-Type Lectin-Like Receptor 2 3 4
  • CLEC-2 3 4
  • CLEC2 3 4
  • C-Type Lectin Domain Family 1, Member B 2
  • 1810061I13Rik 3
  • PRO1384 3
  • QDED721 3
  • CLEC2B 3

External Ids for CLEC1B Gene

Previous GeneCards Identifiers for CLEC1B Gene

  • GC12M010037
  • GC12M010145
  • GC12M009888
  • GC12M010147
  • GC12M010260
  • GC12M010502
  • GC12M010076
  • GC12M010609
  • GC12M010768
  • GC12M011006
  • GC12M011296
  • GC12M011530
  • GC12M011723

Summaries for CLEC1B Gene

Entrez Gene Summary for CLEC1B Gene

  • Natural killer (NK) cells express multiple calcium-dependent (C-type) lectin-like receptors, such as CD94 (KLRD1; MIM 602894) and NKG2D (KLRC4; MIM 602893), that interact with major histocompatibility complex class I molecules and either inhibit or activate cytotoxicity and cytokine secretion. CLEC2 is a C-type lectin-like receptor expressed in myeloid cells and NK cells (Colonna et al., 2000 [PubMed 10671229]).[supplied by OMIM, Jan 2011]

GeneCards Summary for CLEC1B Gene

CLEC1B (C-Type Lectin Domain Family 1 Member B) is a Protein Coding gene. Diseases associated with CLEC1B include Human Immunodeficiency Virus Type 1. Among its related pathways are Response to elevated platelet cytosolic Ca2+ and G beta-gamma signalling through PI3Kgamma. Gene Ontology (GO) annotations related to this gene include transmembrane signaling receptor activity and carbohydrate binding. An important paralog of this gene is CLEC12B.

UniProtKB/Swiss-Prot for CLEC1B Gene

  • C-type lectin-like receptor that functions as a platelet receptor for the lymphatic endothelial marker, PDPN (PubMed:18215137). After ligand activation, signals via sequential activation of SRC and SYK tyrosine kinases leading to activation of PLCG2 (PubMed:18955485).

  • (Microbial infection) Acts as a receptor for the platelet-aggregating snake venom protein rhodocytin. Rhodocytin binding leads to tyrosine phosphorylation and this promotes the binding of spleen tyrosine kinase (SYK) and initiation of downstream tyrosine phosphorylation events and activation of PLCG2 (PubMed:16174766, PubMed:18955485). Acts as an attachment factor for human immunodeficiency virus type 1 (HIV-1) and facilitates its capture by platelets (PubMed:16940507).

Gene Wiki entry for CLEC1B Gene

Additional gene information for CLEC1B Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CLEC1B Gene

Genomics for CLEC1B Gene

Products:

  1. Regulatory Element

GeneHancer (GH) Regulatory Elements for CLEC1B Gene

Promoters and enhancers for CLEC1B Gene
GeneHancer (GH) Identifier GH Type GH
Score		 GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites		 Gene Targets
GH12I010000 Promoter 0.7 EPDnew 550.4 +14.2 14183 0.1 MAFG NFE2 CLEC1B CLEC12A-AS1 CLEC12A CLEC9A LOC102724020 CLEC12B
GH12I009999 Promoter 0.5 EPDnew 550.4 +14.1 14053 0.1 CLEC1B CLEC12A-AS1 CLEC12A CLEC9A LOC102724020 CLEC12B
GH12I009942 Enhancer 1.3 FANTOM5 Ensembl ENCODE dbSUPER 10.5 +69.7 69725 2.2 MAZ SP2 GABPA ZSCAN21 HIC1 ZNF366 GLIS1 PATZ1 ZNF629 PRDM10 LINC02470 OLR1 CLEC12A CLEC7A CLEC1B GABARAPL1 CD69
GH12I009948 Enhancer 1.1 Ensembl ENCODE dbSUPER 10.8 +64.5 64475 1.1 PKNOX1 BMI1 BATF IRF4 ATF7 ETV6 IKZF2 RUNX3 TRIM22 JUNB CLEC12A CLEC12B CLEC1B CLEC7A CLEC9A LOC102724020 CLEC12A-AS1 LINC02470
GH12I009947 Enhancer 0.8 ENCODE dbSUPER 10.8 +65.6 65567 0.1 JUNB DPF2 BATF ATF2 IRF4 IKZF1 RUNX3 IKZF2 SPI1 CLEC12B CLEC1B CLEC7A CLEC9A LOC102724020 CLEC12A LINC02470
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around CLEC1B on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CLEC1B gene promoter:

Genomic Locations for CLEC1B Gene

Genomic Locations for CLEC1B Gene
chr12:9,985,642-10,013,424
(GRCh38/hg38)
Size:
27,783 bases
Orientation:
Minus strand
chr12:10,138,241-10,166,023
(GRCh37/hg19)

Genomic View for CLEC1B Gene

Genes around CLEC1B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CLEC1B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CLEC1B Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for CLEC1B Gene

Proteins for CLEC1B Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for CLEC1B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9P126-CLC1B_HUMAN
    Recommended name:
    C-type lectin domain family 1 member B
    Protein Accession:
    Q9P126
    Secondary Accessions:
    • Q6UWX7
    • Q8NHR6

    Protein attributes for CLEC1B Gene

    Size:
    229 amino acids
    Molecular mass:
    26596 Da
    Quaternary structure:
    • Homodimer. Interacts (via cytoplasmic domain) with RACK1; promotes CLEC1B ubiquitination and proteasome-mediated degradation. Interacts (dimer) with SYK (via SH2 domains). Interacts with PDPN; the interaction is independent of CLEC1B glycosylation and activates CLEC1B (PubMed:18215137).

    Three dimensional structures from OCA and Proteopedia for CLEC1B Gene

    Alternative splice isoforms for CLEC1B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CLEC1B Gene

Protein Expression for CLEC1B Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for CLEC1B Gene

Other Protein References for CLEC1B Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

  • R&D Systems Antibodies for CLEC1B (CLEC-2/CLEC1B)
  • Abcam antibodies for CLEC1B

No data available for DME Specific Peptides for CLEC1B Gene

Domains & Families for CLEC1B Gene

Gene Families for CLEC1B Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted membrane proteins

Protein Domains for CLEC1B Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for CLEC1B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with CLEC1B: view

No data available for UniProtKB/Swiss-Prot for CLEC1B Gene

Function for CLEC1B Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Molecular function for CLEC1B Gene

UniProtKB/Swiss-Prot Function:
C-type lectin-like receptor that functions as a platelet receptor for the lymphatic endothelial marker, PDPN (PubMed:18215137). After ligand activation, signals via sequential activation of SRC and SYK tyrosine kinases leading to activation of PLCG2 (PubMed:18955485).
UniProtKB/Swiss-Prot Function:
(Microbial infection) Acts as a receptor for the platelet-aggregating snake venom protein rhodocytin. Rhodocytin binding leads to tyrosine phosphorylation and this promotes the binding of spleen tyrosine kinase (SYK) and initiation of downstream tyrosine phosphorylation events and activation of PLCG2 (PubMed:16174766, PubMed:18955485). Acts as an attachment factor for human immunodeficiency virus type 1 (HIV-1) and facilitates its capture by platelets (PubMed:16940507).

Phenotypes From GWAS Catalog for CLEC1B Gene

Gene Ontology (GO) - Molecular Function for CLEC1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004888 transmembrane signaling receptor activity IDA 18955485
GO:0005515 protein binding IPI 17616532
GO:0030246 carbohydrate binding IEA --
genes like me logo Genes that share ontologies with CLEC1B: view
genes like me logo Genes that share phenotypes with CLEC1B: view

Animal Models for CLEC1B Gene

MGI Knock Outs for CLEC1B:

Animal Model Products

CRISPR Products

miRNA for CLEC1B Gene

miRTarBase miRNAs that target CLEC1B

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CLEC1B Gene

Localization for CLEC1B Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLEC1B 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 CLEC1B gene
Compartment Confidence
plasma membrane 5
extracellular 2
mitochondrion 1
cytosol 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for CLEC1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane TAS --
GO:0005887 integral component of plasma membrane TAS,IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with CLEC1B: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for CLEC1B Gene

Pathways & Interactions for CLEC1B Gene

genes like me logo Genes that share pathways with CLEC1B: view

Pathways by source for CLEC1B Gene

Gene Ontology (GO) - Biological Process for CLEC1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006952 defense response TAS 10671229
GO:0007166 cell surface receptor signaling pathway TAS 10671229
GO:0023014 signal transduction by protein phosphorylation IDA 18955485
GO:0030168 platelet activation TAS --
GO:0030220 platelet formation IEA --
genes like me logo Genes that share ontologies with CLEC1B: view

No data available for SIGNOR curated interactions for CLEC1B Gene

Drugs & Compounds for CLEC1B Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for CLEC1B Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for CLEC1B Gene

(7) REFSEQ mRNAs :
(4) Additional mRNA sequences :
(17) Selected AceView cDNA sequences:
(4) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for CLEC1B Gene

C-type lectin domain family 1, member B:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for CLEC1B Gene

No ASD Table

Relevant External Links for CLEC1B Gene

GeneLoc Exon Structure for
CLEC1B
ECgene alternative splicing isoforms for
CLEC1B

Expression for CLEC1B Gene

Products:

  1. Primer

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CLEC1B Gene

mRNA expression in normal human tissues for CLEC1B Gene
mRNA expression by GTEx for CLEC1B GenemRNA expression by BioGPS for CLEC1B Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CLEC1B Gene

This gene is overexpressed in Liver (x22.4) and Whole Blood (x17.8).

Protein differential expression in normal tissues from HIPED for CLEC1B Gene

This gene is overexpressed in Peripheral blood mononuclear cells (37.9) and Platelet (30.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for CLEC1B Gene



Protein tissue co-expression partners for CLEC1B Gene

NURSA nuclear receptor signaling pathways regulating expression of CLEC1B Gene:

CLEC1B

SOURCE GeneReport for Unigene cluster for CLEC1B Gene:

Hs.409794

mRNA Expression by UniProt/SwissProt for CLEC1B Gene:

Q9P126-CLC1B_HUMAN
Tissue specificity: Expressed preferentially in the liver. Also expressed in immune cells of myeloid origin and on the surface of platelets.

Evidence on tissue expression from TISSUES for CLEC1B Gene

  • Liver(4.4)
  • Blood(2.4)
genes like me logo Genes that share expression patterns with CLEC1B: view

Primer Products

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for CLEC1B Gene

Orthologs for CLEC1B Gene

This gene was present in the common ancestor of chordates.

Orthologs for CLEC1B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia CLEC1B 33 34
  • 98.25 (n)
cow
(Bos Taurus)
 Mammalia CLEC1B 33 34
  • 78.81 (n)
mouse
(Mus musculus)
 Mammalia Clec1b 33 16 34
  • 75.52 (n)
rat
(Rattus norvegicus)
 Mammalia Clec1b 33
  • 74.19 (n)
dog
(Canis familiaris)
 Mammalia CLEC1B 34
  • 58 (a)
 OneToOne
oppossum
(Monodelphis domestica)
 Mammalia CLEC1B 34
  • 57 (a)
 OneToOne
platypus
(Ornithorhynchus anatinus)
 Mammalia CLEC1B 34
  • 44 (a)
 OneToOne
lizard
(Anolis carolinensis)
 Reptilia -- 34
  • 32 (a)
 OneToMany
Species where no ortholog for CLEC1B 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)
  • 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 CLEC1B Gene

ENSEMBL:
Gene Tree for CLEC1B (if available)
TreeFam:
Gene Tree for CLEC1B (if available)

Paralogs for CLEC1B Gene

Paralogs for CLEC1B Gene

(11) SIMAP similar genes for CLEC1B Gene using alignment to 2 proteins:

Pseudogenes.org Pseudogenes for CLEC1B Gene

genes like me logo Genes that share paralogs with CLEC1B: view

Variants for CLEC1B Gene

Sequence variations from dbSNP and Humsavar for CLEC1B Gene

SNP ID Clin Chr 12 pos Variation AA Info Type
rs1000112368 -- 9,990,957(-) C/T 3_prime_UTR_variant, genic_downstream_transcript_variant, intron_variant
rs1000443074 -- 9,990,712(-) A/G downstream_transcript_variant, genic_downstream_transcript_variant, intron_variant
rs1000961036 -- 9,995,984(-) A/G intron_variant
rs1001046687 -- 9,988,477(-) C/A/T genic_downstream_transcript_variant, intron_variant
rs1001144662 -- 9,988,334(-) C/T genic_downstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for CLEC1B Gene

Variant ID Type Subtype PubMed ID
dgv1374n100 CNV gain 25217958
esv9698 OTHER inversion 19470904
nsv525593 CNV loss 19592680
nsv604 CNV deletion 18451855

Variation tolerance for CLEC1B Gene

Residual Variation Intolerance Score: 73.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.63; 72.63% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CLEC1B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CLEC1B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CLEC1B Gene

Disorders for CLEC1B Gene

MalaCards: The human disease database

(1) MalaCards diseases for CLEC1B Gene - From: GeneCards

Disorder Aliases PubMed IDs
human immunodeficiency virus type 1
  • human immunodeficiency virus type 1, susceptibility to
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for CLEC1B

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with CLEC1B: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CLEC1B Gene

Publications for CLEC1B Gene

  1. Molecular characterization of two novel C-type lectin-like receptors, one of which is selectively expressed in human dendritic cells. (PMID: 10671229) Colonna M … Angman L (European journal of immunology 2000) 2 3 4 22 58
  2. Renal cells activate the platelet receptor CLEC-2 through podoplanin. (PMID: 18215137) Christou CM … O'Callaghan CA (The Biochemical journal 2008) 3 4 22 58
  3. G6b-B inhibits constitutive and agonist-induced signaling by glycoprotein VI and CLEC-2. (PMID: 18955485) Mori J … Watson SP (The Journal of biological chemistry 2008) 3 4 22 58
  4. DC-SIGN and CLEC-2 mediate human immunodeficiency virus type 1 capture by platelets. (PMID: 16940507) Chaipan C … Pöhlmann S (Journal of virology 2006) 3 4 22 58
  5. A novel cluster of lectin-like receptor genes expressed in monocytic, dendritic and endothelial cells maps close to the NK receptor genes in the human NK gene complex. (PMID: 11745369) Sobanov Y … Hofer E (European journal of immunology 2001) 2 3 22 58

Products for CLEC1B Gene

Sources for CLEC1B Gene

Content
Loading form....