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SCARB2 (scavenger receptor class B member 2)

Identity

Alias_namesCD36L2
CD36 antigen (collagen type I receptor, thrombospondin receptor)-like 2 (lysosomal integral membrane protein II)
scavenger receptor class B, member 2
Alias_symbol (synonym)HLGP85
LIMPII
SR-BII
LIMP-2
Other aliasAMRF
EPM4
LGP85
HGNC (Hugo) SCARB2
LocusID (NCBI) 950
Atlas_Id 52675
Location 4q21.1  [Link to chromosome band 4q21]
Location_base_pair Starts at 77079892 and ends at 77135052 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
EYS (6q12) / SCARB2 (4q21.1)SCARB2 (4q21.1) / CCDC158 (4q21.1)SCARB2 (4q21.1) / CYP19A1 (15q21.2)
SCARB2 (4q21.1) / ESRP2 (16q22.1)SCARB2 (4q21.1) / JAK1 (1p31.3)SCARB2 (4q21.1) / LAMP2 (Xq24)
SCARB2 (4q21.1) / LOC100132247 ()SCARB2 (4q21.1) / SCARB2 (4q21.1)SCARB2 (4q21.1) / SERPINE1 (7q22.1)
SCARB2 (4q21.1) / STAU2 (8q21.11)TNFAIP8 (5q23.1) / SCARB2 (4q21.1)SCARB2 4q21.1 / STAU2 8q21.11

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)SCARB2   1665
Cards
Entrez_Gene (NCBI)SCARB2  950  scavenger receptor class B member 2
AliasesAMRF; CD36L2; EPM4; HLGP85; 
LGP85; LIMP-2; LIMPII; SR-BII
GeneCards (Weizmann)SCARB2
Ensembl hg19 (Hinxton)ENSG00000138760 [Gene_View]  chr4:77079892-77135052 [Contig_View]  SCARB2 [Vega]
Ensembl hg38 (Hinxton)ENSG00000138760 [Gene_View]  chr4:77079892-77135052 [Contig_View]  SCARB2 [Vega]
ICGC DataPortalENSG00000138760
TCGA cBioPortalSCARB2
AceView (NCBI)SCARB2
Genatlas (Paris)SCARB2
WikiGenes950
SOURCE (Princeton)SCARB2
Genetics Home Reference (NIH)SCARB2
Genomic and cartography
GoldenPath hg19 (UCSC)SCARB2  -     chr4:77079892-77135052 -  4q21.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)SCARB2  -     4q21.1   [Description]    (hg38-Dec_2013)
EnsemblSCARB2 - 4q21.1 [CytoView hg19]  SCARB2 - 4q21.1 [CytoView hg38]
Mapping of homologs : NCBISCARB2 [Mapview hg19]  SCARB2 [Mapview hg38]
OMIM254900   602257   
Gene and transcription
Genbank (Entrez)AK022432 AK056001 AK296519 AK313016 BC021892
RefSeq transcript (Entrez)NM_001204255 NM_005506
RefSeq genomic (Entrez)NC_000004 NC_018915 NG_012054 NT_016354 NW_004929320
Consensus coding sequences : CCDS (NCBI)SCARB2
Cluster EST : UnigeneHs.349656 [ NCBI ]
CGAP (NCI)Hs.349656
Alternative Splicing GalleryENSG00000138760
Gene ExpressionSCARB2 [ NCBI-GEO ]   SCARB2 [ EBI - ARRAY_EXPRESS ]   SCARB2 [ SEEK ]   SCARB2 [ MEM ]
Gene Expression Viewer (FireBrowse)SCARB2 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)950
GTEX Portal (Tissue expression)SCARB2
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ14108   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ14108  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ14108
Splice isoforms : SwissVarQ14108
PhosPhoSitePlusQ14108
Domains : Interpro (EBI)CD36_fam    LimpII   
Domain families : Pfam (Sanger)CD36 (PF01130)   
Domain families : Pfam (NCBI)pfam01130   
Conserved Domain (NCBI)SCARB2
DMDM Disease mutations950
Blocks (Seattle)SCARB2
PDB (SRS)4F7B    4Q4B    4Q4F    4TVZ    4TW0    4TW2   
PDB (PDBSum)4F7B    4Q4B    4Q4F    4TVZ    4TW0    4TW2   
PDB (IMB)4F7B    4Q4B    4Q4F    4TVZ    4TW0    4TW2   
PDB (RSDB)4F7B    4Q4B    4Q4F    4TVZ    4TW0    4TW2   
Structural Biology KnowledgeBase4F7B    4Q4B    4Q4F    4TVZ    4TW0    4TW2   
SCOP (Structural Classification of Proteins)4F7B    4Q4B    4Q4F    4TVZ    4TW0    4TW2   
CATH (Classification of proteins structures)4F7B    4Q4B    4Q4F    4TVZ    4TW0    4TW2   
SuperfamilyQ14108
Human Protein AtlasENSG00000138760
Peptide AtlasQ14108
HPRD03772
IPIIPI00217766   IPI00909338   IPI00967709   
Protein Interaction databases
DIP (DOE-UCLA)Q14108
IntAct (EBI)Q14108
FunCoupENSG00000138760
BioGRIDSCARB2
STRING (EMBL)SCARB2
ZODIACSCARB2
Ontologies - Pathways
QuickGOQ14108
Ontology : AmiGOvirus receptor activity  protein binding  lysosomal membrane  lysosomal membrane  focal adhesion  protein targeting to lysosome  membrane  integral component of membrane  enzyme binding  lysosomal lumen  viral entry into host cell  extracellular exosome  
Ontology : EGO-EBIvirus receptor activity  protein binding  lysosomal membrane  lysosomal membrane  focal adhesion  protein targeting to lysosome  membrane  integral component of membrane  enzyme binding  lysosomal lumen  viral entry into host cell  extracellular exosome  
Pathways : KEGGLysosome   
NDEx NetworkSCARB2
Atlas of Cancer Signalling NetworkSCARB2
Wikipedia pathwaysSCARB2
Orthology - Evolution
OrthoDB950
GeneTree (enSembl)ENSG00000138760
Phylogenetic Trees/Animal Genes : TreeFamSCARB2
HOVERGENQ14108
HOGENOMQ14108
Homologs : HomoloGeneSCARB2
Homology/Alignments : Family Browser (UCSC)SCARB2
Gene fusions - Rearrangements
Fusion : MitelmanSCARB2/STAU2 [4q21.1/8q21.11]  
Fusion: TCGASCARB2 4q21.1 STAU2 8q21.11 BRCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSCARB2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SCARB2
dbVarSCARB2
ClinVarSCARB2
1000_GenomesSCARB2 
Exome Variant ServerSCARB2
ExAC (Exome Aggregation Consortium)SCARB2 (select the gene name)
Genetic variants : HAPMAP950
Genomic Variants (DGV)SCARB2 [DGVbeta]
DECIPHER (Syndromes)4:77079892-77135052  ENSG00000138760
CONAN: Copy Number AnalysisSCARB2 
Mutations
ICGC Data PortalSCARB2 
TCGA Data PortalSCARB2 
Broad Tumor PortalSCARB2
OASIS PortalSCARB2 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSCARB2  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSCARB2
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
LOVD (Leiden Open Variation Database)Mendelian genes
BioMutasearch SCARB2
DgiDB (Drug Gene Interaction Database)SCARB2
DoCM (Curated mutations)SCARB2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SCARB2 (select a term)
intoGenSCARB2
Cancer3DSCARB2(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM254900    602257   
Orphanet17526    294    11102   
MedgenSCARB2
Genetic Testing Registry SCARB2
NextProtQ14108 [Medical]
TSGene950
GENETestsSCARB2
Huge Navigator SCARB2 [HugePedia]
snp3D : Map Gene to Disease950
BioCentury BCIQSCARB2
ClinGenSCARB2 (curated)
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD950
Chemical/Pharm GKB GenePA35038
Clinical trialSCARB2
Miscellaneous
canSAR (ICR)SCARB2 (select the gene name)
Probes
Litterature
PubMed79 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSCARB2
EVEXSCARB2
GoPubMedSCARB2
iHOPSCARB2
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Mar 30 15:18:26 CEST 2017

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