Atlas of Genetics and Cytogenetics in Oncology and Haematology


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EXOSC3 (exosome component 3)

Identity

Alias_symbol (synonym)hRrp40p
Rrp40p
RRP40
CGI-102
p10
hRrp-40
Other aliasPCH1B
bA3J10.7
HGNC (Hugo) EXOSC3
LocusID (NCBI) 51010
Atlas_Id 62951
Location 9p13.2  [Link to chromosome band 9p13]
Location_base_pair Starts at 37779714 and ends at 37785092 bp from pter ( according to hg38-Dec_2013)

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)EXOSC3   17944
Cards
Entrez_Gene (NCBI)EXOSC3  51010  exosome component 3
AliasesCGI-102; PCH1B; RRP40; Rrp40p; 
bA3J10.7; hRrp-40; p10
GeneCards (Weizmann)EXOSC3
Ensembl hg19 (Hinxton)ENSG00000107371 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000107371 [Gene_View]  chr9:37779714-37785092 [Contig_View]  EXOSC3 [Vega]
ICGC DataPortalENSG00000107371
TCGA cBioPortalEXOSC3
AceView (NCBI)EXOSC3
Genatlas (Paris)EXOSC3
WikiGenes51010
SOURCE (Princeton)EXOSC3
Genetics Home Reference (NIH)EXOSC3
Genomic and cartography
GoldenPath hg38 (UCSC)EXOSC3  -     chr9:37779714-37785092 -  9p13.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)EXOSC3  -     9p13.2   [Description]    (hg19-Feb_2009)
EnsemblEXOSC3 - 9p13.2 [CytoView hg19]  EXOSC3 - 9p13.2 [CytoView hg38]
Mapping of homologs : NCBIEXOSC3 [Mapview hg19]  EXOSC3 [Mapview hg38]
OMIM606489   614678   
Gene and transcription
Genbank (Entrez)AF151860 AF229833 AF281132 AI886209 AK289571
RefSeq transcript (Entrez)NM_001002269 NM_016042
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)EXOSC3
Cluster EST : UnigeneHs.713483 [ NCBI ]
CGAP (NCI)Hs.713483
Alternative Splicing GalleryENSG00000107371
Gene ExpressionEXOSC3 [ NCBI-GEO ]   EXOSC3 [ EBI - ARRAY_EXPRESS ]   EXOSC3 [ SEEK ]   EXOSC3 [ MEM ]
Gene Expression Viewer (FireBrowse)EXOSC3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)51010
GTEX Portal (Tissue expression)EXOSC3
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9NQT5   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9NQT5  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9NQT5
Splice isoforms : SwissVarQ9NQT5
PhosPhoSitePlusQ9NQT5
Domains : Interpro (EBI)Exosome_RNA_bind1/RRP40/RRP4    KH_dom_type_1    NA-bd_OB-fold   
Domain families : Pfam (Sanger)KH_6 (PF15985)   
Domain families : Pfam (NCBI)pfam15985   
Conserved Domain (NCBI)EXOSC3
DMDM Disease mutations51010
Blocks (Seattle)EXOSC3
PDB (SRS)2NN6   
PDB (PDBSum)2NN6   
PDB (IMB)2NN6   
PDB (RSDB)2NN6   
Structural Biology KnowledgeBase2NN6   
SCOP (Structural Classification of Proteins)2NN6   
CATH (Classification of proteins structures)2NN6   
SuperfamilyQ9NQT5
Human Protein AtlasENSG00000107371
Peptide AtlasQ9NQT5
HPRD16220
IPIIPI00015956   IPI00434985   
Protein Interaction databases
DIP (DOE-UCLA)Q9NQT5
IntAct (EBI)Q9NQT5
FunCoupENSG00000107371
BioGRIDEXOSC3
STRING (EMBL)EXOSC3
ZODIACEXOSC3
Ontologies - Pathways
QuickGOQ9NQT5
Ontology : AmiGO3'-5'-exoribonuclease activity  nuclear exosome (RNase complex)  cytoplasmic exosome (RNase complex)  exosome (RNase complex)  exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)  RNA binding  exoribonuclease activity  protein binding  nucleus  nucleoplasm  nucleoplasm  nucleolus  cytoplasm  cytosol  rRNA processing  rRNA processing  nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5'  U4 snRNA 3'-end processing  transcriptionally active chromatin  regulation of mRNA stability  exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay  exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay  DNA deamination  isotype switching  positive regulation of isotype switching  CUT catabolic process  nuclear polyadenylation-dependent rRNA catabolic process  nuclear polyadenylation-dependent tRNA catabolic process  nuclear retention of pre-mRNA with aberrant 3'-ends at the site of transcription  polyadenylation-dependent snoRNA 3'-end processing  
Ontology : EGO-EBI3'-5'-exoribonuclease activity  nuclear exosome (RNase complex)  cytoplasmic exosome (RNase complex)  exosome (RNase complex)  exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)  RNA binding  exoribonuclease activity  protein binding  nucleus  nucleoplasm  nucleoplasm  nucleolus  cytoplasm  cytosol  rRNA processing  rRNA processing  nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5'  U4 snRNA 3'-end processing  transcriptionally active chromatin  regulation of mRNA stability  exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay  exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay  DNA deamination  isotype switching  positive regulation of isotype switching  CUT catabolic process  nuclear polyadenylation-dependent rRNA catabolic process  nuclear polyadenylation-dependent tRNA catabolic process  nuclear retention of pre-mRNA with aberrant 3'-ends at the site of transcription  polyadenylation-dependent snoRNA 3'-end processing  
Pathways : KEGGRNA degradation   
NDEx NetworkEXOSC3
Atlas of Cancer Signalling NetworkEXOSC3
Wikipedia pathwaysEXOSC3
Orthology - Evolution
OrthoDB51010
GeneTree (enSembl)ENSG00000107371
Phylogenetic Trees/Animal Genes : TreeFamEXOSC3
HOVERGENQ9NQT5
HOGENOMQ9NQT5
Homologs : HomoloGeneEXOSC3
Homology/Alignments : Family Browser (UCSC)EXOSC3
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerEXOSC3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)EXOSC3
dbVarEXOSC3
ClinVarEXOSC3
1000_GenomesEXOSC3 
Exome Variant ServerEXOSC3
ExAC (Exome Aggregation Consortium)EXOSC3 (select the gene name)
Genetic variants : HAPMAP51010
Genomic Variants (DGV)EXOSC3 [DGVbeta]
DECIPHEREXOSC3 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisEXOSC3 
Mutations
ICGC Data PortalEXOSC3 
TCGA Data PortalEXOSC3 
Broad Tumor PortalEXOSC3
OASIS PortalEXOSC3 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICEXOSC3  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDEXOSC3
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)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)MSeqDR-LSDB Mitochondrial Disease Locus Specific Database
BioMutasearch EXOSC3
DgiDB (Drug Gene Interaction Database)EXOSC3
DoCM (Curated mutations)EXOSC3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)EXOSC3 (select a term)
intoGenEXOSC3
Cancer3DEXOSC3(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM606489    614678   
Orphanet3132   
MedgenEXOSC3
Genetic Testing Registry EXOSC3
NextProtQ9NQT5 [Medical]
TSGene51010
GENETestsEXOSC3
Target ValidationEXOSC3
Huge Navigator EXOSC3 [HugePedia]
snp3D : Map Gene to Disease51010
BioCentury BCIQEXOSC3
ClinGenEXOSC3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD51010
Chemical/Pharm GKB GenePA134926550
Clinical trialEXOSC3
Miscellaneous
canSAR (ICR)EXOSC3 (select the gene name)
Probes
Litterature
PubMed43 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineEXOSC3
EVEXEXOSC3
GoPubMedEXOSC3
iHOPEXOSC3
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Wed Jun 7 15:47:34 CEST 2017

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