Atlas of Genetics and Cytogenetics in Oncology and Haematology


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CLEC4M (C-type lectin domain family 4 member M)

Identity

Alias_namesCD209L
CD299
CD299 antigen
C-type lectin domain family 4, member M
Alias_symbol (synonym)HP10347
DC-SIGNR
LSIGN
DCSIGNR
DC-SIGN2
Other aliasL-SIGN
HGNC (Hugo) CLEC4M
LocusID (NCBI) 10332
Atlas_Id 53673
Location 19p13.2  [Link to chromosome band 19p13]
Location_base_pair Starts at 7763149 and ends at 7769605 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)CLEC4M   13523
Cards
Entrez_Gene (NCBI)CLEC4M  10332  C-type lectin domain family 4 member M
AliasesCD209L; CD299; DC-SIGN2; DC-SIGNR; 
DCSIGNR; HP10347; L-SIGN; LSIGN
GeneCards (Weizmann)CLEC4M
Ensembl hg19 (Hinxton)ENSG00000104938 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000104938 [Gene_View]  chr19:7763149-7769605 [Contig_View]  CLEC4M [Vega]
ICGC DataPortalENSG00000104938
TCGA cBioPortalCLEC4M
AceView (NCBI)CLEC4M
Genatlas (Paris)CLEC4M
WikiGenes10332
SOURCE (Princeton)CLEC4M
Genetics Home Reference (NIH)CLEC4M
Genomic and cartography
GoldenPath hg38 (UCSC)CLEC4M  -     chr19:7763149-7769605 +  19p13.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CLEC4M  -     19p13.2   [Description]    (hg19-Feb_2009)
EnsemblCLEC4M - 19p13.2 [CytoView hg19]  CLEC4M - 19p13.2 [CytoView hg38]
Mapping of homologs : NCBICLEC4M [Mapview hg19]  CLEC4M [Mapview hg38]
OMIM605872   
Gene and transcription
Genbank (Entrez)AA431250 AB015629 AF245219 AF290887 AK023750
RefSeq transcript (Entrez)NM_001144904 NM_001144905 NM_001144906 NM_001144907 NM_001144908 NM_001144909 NM_001144910 NM_001144911 NM_014257 NM_214675 NM_214676
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)CLEC4M
Cluster EST : UnigeneHs.421437 [ NCBI ]
CGAP (NCI)Hs.421437
Alternative Splicing GalleryENSG00000104938
Gene ExpressionCLEC4M [ NCBI-GEO ]   CLEC4M [ EBI - ARRAY_EXPRESS ]   CLEC4M [ SEEK ]   CLEC4M [ MEM ]
Gene Expression Viewer (FireBrowse)CLEC4M [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)10332
GTEX Portal (Tissue expression)CLEC4M
Human Protein AtlasENSG00000104938-CLEC4M [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9H2X3   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9H2X3  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9H2X3
Splice isoforms : SwissVarQ9H2X3
PhosPhoSitePlusQ9H2X3
Domaine pattern : Prosite (Expaxy)C_TYPE_LECTIN_1 (PS00615)    C_TYPE_LECTIN_2 (PS50041)   
Domains : Interpro (EBI)C-type_lectin-like    C-type_lectin-like/link    C-type_lectin_CS    CD209-like_CTLD    CTDL_fold   
Domain families : Pfam (Sanger)Lectin_C (PF00059)   
Domain families : Pfam (NCBI)pfam00059   
Domain families : Smart (EMBL)CLECT (SM00034)  
Conserved Domain (NCBI)CLEC4M
DMDM Disease mutations10332
Blocks (Seattle)CLEC4M
PDB (SRS)1K9J    1SL6    1XAR    1XPH    1Z0Y    3JQH   
PDB (PDBSum)1K9J    1SL6    1XAR    1XPH    1Z0Y    3JQH   
PDB (IMB)1K9J    1SL6    1XAR    1XPH    1Z0Y    3JQH   
PDB (RSDB)1K9J    1SL6    1XAR    1XPH    1Z0Y    3JQH   
Structural Biology KnowledgeBase1K9J    1SL6    1XAR    1XPH    1Z0Y    3JQH   
SCOP (Structural Classification of Proteins)1K9J    1SL6    1XAR    1XPH    1Z0Y    3JQH   
CATH (Classification of proteins structures)1K9J    1SL6    1XAR    1XPH    1Z0Y    3JQH   
SuperfamilyQ9H2X3
Human Protein Atlas [tissue]ENSG00000104938-CLEC4M [tissue]
Peptide AtlasQ9H2X3
HPRD12060
IPIIPI00385903   IPI00642143   IPI00410004   IPI00410005   IPI00156091   IPI00290003   IPI00382671   IPI00410009   IPI00874038   IPI00003402   IPI00409772   IPI00748018   IPI01016068   IPI00943042   IPI00922313   IPI00922589   
Protein Interaction databases
DIP (DOE-UCLA)Q9H2X3
IntAct (EBI)Q9H2X3
FunCoupENSG00000104938
BioGRIDCLEC4M
STRING (EMBL)CLEC4M
ZODIACCLEC4M
Ontologies - Pathways
QuickGOQ9H2X3
Ontology : AmiGOvirus receptor activity  virus receptor activity  adaptive immune response  receptor activity  mannose binding  extracellular region  cytoplasm  integral component of plasma membrane  endocytosis  leukocyte cell-cell adhesion  cell-cell recognition  regulation of gene expression  membrane  modulation by virus of host morphology or physiology  virion attachment to host cell  viral genome replication  antigen processing and presentation  regulation of blood coagulation  carbohydrate binding  ICAM-3 receptor activity  intracellular signal transduction  peptide antigen binding  innate immune response  viral entry into host cell  virion binding  metal ion binding  peptide antigen transport  calcium-dependent protein binding  intracellular transport of virus  
Ontology : EGO-EBIvirus receptor activity  virus receptor activity  adaptive immune response  receptor activity  mannose binding  extracellular region  cytoplasm  integral component of plasma membrane  endocytosis  leukocyte cell-cell adhesion  cell-cell recognition  regulation of gene expression  membrane  modulation by virus of host morphology or physiology  virion attachment to host cell  viral genome replication  antigen processing and presentation  regulation of blood coagulation  carbohydrate binding  ICAM-3 receptor activity  intracellular signal transduction  peptide antigen binding  innate immune response  viral entry into host cell  virion binding  metal ion binding  peptide antigen transport  calcium-dependent protein binding  intracellular transport of virus  
Pathways : KEGGPhagosome    Tuberculosis    Measles   
NDEx NetworkCLEC4M
Atlas of Cancer Signalling NetworkCLEC4M
Wikipedia pathwaysCLEC4M
Orthology - Evolution
OrthoDB10332
GeneTree (enSembl)ENSG00000104938
Phylogenetic Trees/Animal Genes : TreeFamCLEC4M
HOVERGENQ9H2X3
HOGENOMQ9H2X3
Homologs : HomoloGeneCLEC4M
Homology/Alignments : Family Browser (UCSC)CLEC4M
Gene fusions - Rearrangements
Tumor Fusion PortalCLEC4M
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCLEC4M [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CLEC4M
dbVarCLEC4M
ClinVarCLEC4M
1000_GenomesCLEC4M 
Exome Variant ServerCLEC4M
ExAC (Exome Aggregation Consortium)ENSG00000104938
GNOMAD BrowserENSG00000104938
Genetic variants : HAPMAP10332
Genomic Variants (DGV)CLEC4M [DGVbeta]
DECIPHERCLEC4M [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCLEC4M 
Mutations
ICGC Data PortalCLEC4M 
TCGA Data PortalCLEC4M 
Broad Tumor PortalCLEC4M
OASIS PortalCLEC4M [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCLEC4M  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDCLEC4M
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch CLEC4M
DgiDB (Drug Gene Interaction Database)CLEC4M
DoCM (Curated mutations)CLEC4M (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CLEC4M (select a term)
intoGenCLEC4M
Cancer3DCLEC4M(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605872   
Orphanet
DisGeNETCLEC4M
MedgenCLEC4M
Genetic Testing Registry CLEC4M
NextProtQ9H2X3 [Medical]
TSGene10332
GENETestsCLEC4M
Target ValidationCLEC4M
Huge Navigator CLEC4M [HugePedia]
snp3D : Map Gene to Disease10332
BioCentury BCIQCLEC4M
ClinGenCLEC4M
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD10332
Chemical/Pharm GKB GenePA26200
Clinical trialCLEC4M
Miscellaneous
canSAR (ICR)CLEC4M (select the gene name)
Probes
Litterature
PubMed104 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCLEC4M
EVEXCLEC4M
GoPubMedCLEC4M
iHOPCLEC4M
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Nov 21 14:08:04 CET 2017

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