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USP39 (ubiquitin specific peptidase 39)

Identity

Alias_namesubiquitin specific protease 39
Alias_symbol (synonym)SAD1
CGI-21
SNRNP65
Other alias65K
HSPC332
HGNC (Hugo) USP39
LocusID (NCBI) 10713
Atlas_Id 53915
Location 2p11.2  [Link to chromosome band 2p11]
Location_base_pair Starts at 85616092 and ends at 85649284 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
CAMTA1 (1p36.31) / USP39 (2p11.2)NCAPH2 (22q13.33) / USP39 (2p11.2)SGPL1 (10q22.1) / USP39 (2p11.2)
USP39 (2p11.2) / CD8B (2p11.2)USP39 (2p11.2) / DNAH6 (2p11.2)USP39 (2p11.2) / ELMOD3 (2p11.2)
USP39 (2p11.2) / IQCG (3q29)USP39 (2p11.2) / USP39 (2p11.2)USP39 2p11.2 / CD8B 2p11.2
USP39 2p11.2 / DNAH6 2p11.2USP39 2p11.2 / ELMOD3 2p11.2

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)USP39   20071
Cards
Entrez_Gene (NCBI)USP39  10713  ubiquitin specific peptidase 39
Aliases65K; CGI-21; HSPC332; SAD1; 
SNRNP65
GeneCards (Weizmann)USP39
Ensembl hg19 (Hinxton)ENSG00000168883 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000168883 [Gene_View]  chr2:85616092-85649284 [Contig_View]  USP39 [Vega]
ICGC DataPortalENSG00000168883
TCGA cBioPortalUSP39
AceView (NCBI)USP39
Genatlas (Paris)USP39
WikiGenes10713
SOURCE (Princeton)USP39
Genetics Home Reference (NIH)USP39
Genomic and cartography
GoldenPath hg38 (UCSC)USP39  -     chr2:85616092-85649284 +  2p11.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)USP39  -     2p11.2   [Description]    (hg19-Feb_2009)
EnsemblUSP39 - 2p11.2 [CytoView hg19]  USP39 - 2p11.2 [CytoView hg38]
Mapping of homologs : NCBIUSP39 [Mapview hg19]  USP39 [Mapview hg38]
OMIM611594   
Gene and transcription
Genbank (Entrez)AF130096 AF132955 AF161450 AF353989 AI201523
RefSeq transcript (Entrez)NM_001256725 NM_001256726 NM_001256727 NM_001256728 NM_006590
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)USP39
Cluster EST : UnigeneHs.654745 [ NCBI ]
CGAP (NCI)Hs.654745
Alternative Splicing GalleryENSG00000168883
Gene ExpressionUSP39 [ NCBI-GEO ]   USP39 [ EBI - ARRAY_EXPRESS ]   USP39 [ SEEK ]   USP39 [ MEM ]
Gene Expression Viewer (FireBrowse)USP39 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)10713
GTEX Portal (Tissue expression)USP39
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ53GS9   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ53GS9  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ53GS9
Splice isoforms : SwissVarQ53GS9
PhosPhoSitePlusQ53GS9
Domaine pattern : Prosite (Expaxy)USP_3 (PS50235)    ZF_UBP (PS50271)   
Domains : Interpro (EBI)Peptidase_C19_UCH    USP39    USP_dom    Znf_RING/FYVE/PHD    Znf_UBP   
Domain families : Pfam (Sanger)UCH (PF00443)    zf-UBP (PF02148)   
Domain families : Pfam (NCBI)pfam00443    pfam02148   
Domain families : Smart (EMBL)ZnF_UBP (SM00290)  
Conserved Domain (NCBI)USP39
DMDM Disease mutations10713
Blocks (Seattle)USP39
PDB (SRS)3JCR   
PDB (PDBSum)3JCR   
PDB (IMB)3JCR   
PDB (RSDB)3JCR   
Structural Biology KnowledgeBase3JCR   
SCOP (Structural Classification of Proteins)3JCR   
CATH (Classification of proteins structures)3JCR   
SuperfamilyQ53GS9
Human Protein AtlasENSG00000168883
Peptide AtlasQ53GS9
HPRD07165
IPIIPI00419844   IPI00916869   IPI00916761   IPI00916833   IPI00917733   IPI00917974   IPI00927463   
Protein Interaction databases
DIP (DOE-UCLA)Q53GS9
IntAct (EBI)Q53GS9
FunCoupENSG00000168883
BioGRIDUSP39
STRING (EMBL)USP39
ZODIACUSP39
Ontologies - Pathways
QuickGOQ53GS9
Ontology : AmiGOspliceosomal complex assembly  mRNA splicing, via spliceosome  nucleoplasm  nucleoplasm  spliceosomal complex  mRNA processing  cell cycle  zinc ion binding  RNA splicing  protein deubiquitination  thiol-dependent ubiquitinyl hydrolase activity  cell division  
Ontology : EGO-EBIspliceosomal complex assembly  mRNA splicing, via spliceosome  nucleoplasm  nucleoplasm  spliceosomal complex  mRNA processing  cell cycle  zinc ion binding  RNA splicing  protein deubiquitination  thiol-dependent ubiquitinyl hydrolase activity  cell division  
Pathways : KEGGSpliceosome   
NDEx NetworkUSP39
Atlas of Cancer Signalling NetworkUSP39
Wikipedia pathwaysUSP39
Orthology - Evolution
OrthoDB10713
GeneTree (enSembl)ENSG00000168883
Phylogenetic Trees/Animal Genes : TreeFamUSP39
HOVERGENQ53GS9
HOGENOMQ53GS9
Homologs : HomoloGeneUSP39
Homology/Alignments : Family Browser (UCSC)USP39
Gene fusions - Rearrangements
Fusion : MitelmanUSP39/CD8B [2p11.2/2p11.2]  
Fusion : MitelmanUSP39/DNAH6 [2p11.2/2p11.2]  [t(2;2)(p11;p11)]  
Fusion : MitelmanUSP39/ELMOD3 [2p11.2/2p11.2]  [t(2;2)(p11;p11)]  
Fusion: TCGAUSP39 2p11.2 CD8B 2p11.2 HNSC
Fusion: TCGAUSP39 2p11.2 DNAH6 2p11.2 BRCA
Fusion: TCGAUSP39 2p11.2 ELMOD3 2p11.2 BRCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerUSP39 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)USP39
dbVarUSP39
ClinVarUSP39
1000_GenomesUSP39 
Exome Variant ServerUSP39
ExAC (Exome Aggregation Consortium)USP39 (select the gene name)
Genetic variants : HAPMAP10713
Genomic Variants (DGV)USP39 [DGVbeta]
DECIPHERUSP39 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisUSP39 
Mutations
ICGC Data PortalUSP39 
TCGA Data PortalUSP39 
Broad Tumor PortalUSP39
OASIS PortalUSP39 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICUSP39  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDUSP39
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 USP39
DgiDB (Drug Gene Interaction Database)USP39
DoCM (Curated mutations)USP39 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)USP39 (select a term)
intoGenUSP39
Cancer3DUSP39(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM611594   
Orphanet
MedgenUSP39
Genetic Testing Registry USP39
NextProtQ53GS9 [Medical]
TSGene10713
GENETestsUSP39
Target ValidationUSP39
Huge Navigator USP39 [HugePedia]
snp3D : Map Gene to Disease10713
BioCentury BCIQUSP39
ClinGenUSP39
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD10713
Chemical/Pharm GKB GenePA134905136
Clinical trialUSP39
Miscellaneous
canSAR (ICR)USP39 (select the gene name)
Probes
Litterature
PubMed45 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineUSP39
EVEXUSP39
GoPubMedUSP39
iHOPUSP39
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Sep 25 19:37:41 CEST 2017

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