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USP13 (ubiquitin specific peptidase 13)

Identity

Alias_namesubiquitin specific protease 13 (isopeptidase T-3)
Alias_symbol (synonym)IsoT-3
Other aliasISOT3
HGNC (Hugo) USP13
LocusID (NCBI) 8975
Atlas_Id 53713
Location 3q26.33  [Link to chromosome band 3q26]
Location_base_pair Starts at 179653040 and ends at 179789401 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)
EAPP (14q13.1) / USP13 (3q26.33)FXR1 (3q26.33) / USP13 (3q26.33)TBL1XR1 (3q26.32) / USP13 (3q26.33)
USP13 (3q26.33) / PIK3CA (3q26.32)USP13 (3q26.33) / RP5-862P8.2 ()USP13 (3q26.33) / USP13 (3q26.33)
EAPP 14q13.1 / USP13 3q26.33TBL1XR1 3q26.32 / USP13 3q26.33USP13 3q26.33 / PIK3CA 3q26.32
USP13 3q26.33 RP5-862P8.2

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

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 3 ]
  TBL1XR1/USP13 (3q26)
USP13/PIK3CA (3q26)
t(3;14)(q26;q13) EAPP/USP13

External links

Nomenclature
HGNC (Hugo)USP13   12611
Cards
Entrez_Gene (NCBI)USP13  8975  ubiquitin specific peptidase 13
AliasesISOT3; IsoT-3
GeneCards (Weizmann)USP13
Ensembl hg19 (Hinxton)ENSG00000058056 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000058056 [Gene_View]  ENSG00000058056 [Sequence]  chr3:179653040-179789401 [Contig_View]  USP13 [Vega]
ICGC DataPortalENSG00000058056
TCGA cBioPortalUSP13
AceView (NCBI)USP13
Genatlas (Paris)USP13
WikiGenes8975
SOURCE (Princeton)USP13
Genetics Home Reference (NIH)USP13
Genomic and cartography
GoldenPath hg38 (UCSC)USP13  -     chr3:179653040-179789401 +  3q26.33   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)USP13  -     3q26.33   [Description]    (hg19-Feb_2009)
GoldenPathUSP13 - 3q26.33 [CytoView hg19]  USP13 - 3q26.33 [CytoView hg38]
Genome Data Viewer NCBIUSP13 [Mapview hg19]  
OMIM603591   
Gene and transcription
Genbank (Entrez)AK091484 AK290338 AK302404 BC016146 BC049199
RefSeq transcript (Entrez)NM_003940
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)USP13
Alternative Splicing GalleryENSG00000058056
Gene ExpressionUSP13 [ NCBI-GEO ]   USP13 [ EBI - ARRAY_EXPRESS ]   USP13 [ SEEK ]   USP13 [ MEM ]
Gene Expression Viewer (FireBrowse)USP13 [ Firebrowse - Broad ]
GenevisibleExpression of USP13 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)8975
GTEX Portal (Tissue expression)USP13
Human Protein AtlasENSG00000058056-USP13 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ92995   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ92995  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ92995
Splice isoforms : SwissVarQ92995
Catalytic activity : Enzyme3.4.19.12 [ Enzyme-Expasy ]   3.4.19.123.4.19.12 [ IntEnz-EBI ]   3.4.19.12 [ BRENDA ]   3.4.19.12 [ KEGG ]   [ MEROPS ]
PhosPhoSitePlusQ92995
Domaine pattern : Prosite (Expaxy)UBA (PS50030)    USP_1 (PS00972)    USP_2 (PS00973)    USP_3 (PS50235)    ZF_UBP (PS50271)   
Domains : Interpro (EBI)Papain-like_cys_pep_sf    Peptidase_C19_UCH    UBA    UBA-like_sf    Ubiquitinyl_hydrolase    UBP13_Znf-UBP_var    USP_CS    USP_dom    Znf_RING/FYVE/PHD    Znf_UBP   
Domain families : Pfam (Sanger)UBA (PF00627)    UCH (PF00443)    zf-UBP (PF02148)    zf-UBP_var (PF17807)   
Domain families : Pfam (NCBI)pfam00627    pfam00443    pfam02148    pfam17807   
Domain families : Smart (EMBL)UBA (SM00165)  ZnF_UBP (SM00290)  
Conserved Domain (NCBI)USP13
DMDM Disease mutations8975
PDB (RSDB)2L80    2LBC   
PDB Europe2L80    2LBC   
PDB (PDBSum)2L80    2LBC   
PDB (IMB)2L80    2LBC   
Structural Biology KnowledgeBase2L80    2LBC   
SCOP (Structural Classification of Proteins)2L80    2LBC   
CATH (Classification of proteins structures)2L80    2LBC   
SuperfamilyQ92995
Human Protein Atlas [tissue]ENSG00000058056-USP13 [tissue]
Peptide AtlasQ92995
HPRD04666
IPIIPI00024401   IPI00947195   IPI00796577   IPI00946465   
Protein Interaction databases
DIP (DOE-UCLA)Q92995
IntAct (EBI)Q92995
FunCoupENSG00000058056
BioGRIDUSP13
STRING (EMBL)USP13
ZODIACUSP13
Ontologies - Pathways
QuickGOQ92995
Ontology : AmiGOcysteine-type endopeptidase activity  cysteine-type endopeptidase activity  thiol-dependent ubiquitin-specific protease activity  thiol-dependent ubiquitin-specific protease activity  protein binding  nucleus  nucleoplasm  cytosol  cytosol  regulation of transcription, DNA-templated  ubiquitin-dependent protein catabolic process  autophagy  zinc ion binding  cell proliferation  regulation of autophagy  protein deubiquitination  protein deubiquitination  melanocyte differentiation  ubiquitin protein ligase binding  protein K29-linked deubiquitination  thiol-dependent ubiquitinyl hydrolase activity  thiol-dependent ubiquitinyl hydrolase activity  ubiquitin binding  protein K6-linked deubiquitination  ubiquitin-like protein ligase binding  protein stabilization  protein stabilization  chaperone binding  protein K63-linked deubiquitination  proteasome binding  protein K48-linked deubiquitination  BAT3 complex binding  positive regulation of ERAD pathway  maintenance of unfolded protein involved in ERAD pathway  Lys48-specific deubiquitinase activity  
Ontology : EGO-EBIcysteine-type endopeptidase activity  cysteine-type endopeptidase activity  thiol-dependent ubiquitin-specific protease activity  thiol-dependent ubiquitin-specific protease activity  protein binding  nucleus  nucleoplasm  cytosol  cytosol  regulation of transcription, DNA-templated  ubiquitin-dependent protein catabolic process  autophagy  zinc ion binding  cell proliferation  regulation of autophagy  protein deubiquitination  protein deubiquitination  melanocyte differentiation  ubiquitin protein ligase binding  protein K29-linked deubiquitination  thiol-dependent ubiquitinyl hydrolase activity  thiol-dependent ubiquitinyl hydrolase activity  ubiquitin binding  protein K6-linked deubiquitination  ubiquitin-like protein ligase binding  protein stabilization  protein stabilization  chaperone binding  protein K63-linked deubiquitination  proteasome binding  protein K48-linked deubiquitination  BAT3 complex binding  positive regulation of ERAD pathway  maintenance of unfolded protein involved in ERAD pathway  Lys48-specific deubiquitinase activity  
NDEx NetworkUSP13
Atlas of Cancer Signalling NetworkUSP13
Wikipedia pathwaysUSP13
Orthology - Evolution
OrthoDB8975
GeneTree (enSembl)ENSG00000058056
Phylogenetic Trees/Animal Genes : TreeFamUSP13
HOGENOMQ92995
Homologs : HomoloGeneUSP13
Homology/Alignments : Family Browser (UCSC)USP13
Gene fusions - Rearrangements
Fusion : MitelmanEAPP/USP13 [14q13.1/3q26.33]  
Fusion : MitelmanTBL1XR1/USP13 [3q26.32/3q26.33]  
Fusion : MitelmanUSP13/PIK3CA [3q26.33/3q26.32]  
Fusion PortalEAPP 14q13.1 USP13 3q26.33 HNSC
Fusion PortalTBL1XR1 3q26.32 USP13 3q26.33 BRCA
Fusion PortalUSP13 3q26.33 PIK3CA 3q26.32 BRCA
Fusion PortalUSP13 3q26.33 RP5-862P8.2 BRCA
Fusion : QuiverUSP13
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerUSP13 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)USP13
dbVarUSP13
ClinVarUSP13
1000_GenomesUSP13 
Exome Variant ServerUSP13
GNOMAD BrowserENSG00000058056
Varsome BrowserUSP13
Genetic variants : HAPMAP8975
Genomic Variants (DGV)USP13 [DGVbeta]
DECIPHERUSP13 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisUSP13 
Mutations
ICGC Data PortalUSP13 
TCGA Data PortalUSP13 
Broad Tumor PortalUSP13
OASIS PortalUSP13 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICUSP13  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DUSP13
Mutations and Diseases : HGMDUSP13
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
BioMutaselect USP13
DgiDB (Drug Gene Interaction Database)USP13
DoCM (Curated mutations)USP13 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)USP13 (select a term)
intoGenUSP13
Cancer3DUSP13 (select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM603591   
Orphanet
DisGeNETUSP13
MedgenUSP13
Genetic Testing Registry USP13
NextProtQ92995 [Medical]
TSGene8975
GENETestsUSP13
Open Targets GeneticsENSG00000058056  [validation]
snp3D : Map Gene to Disease8975
BioCentury BCIQUSP13
ClinGenUSP13
Clinical trials, drugs, therapy
Protein Interactions : CTD8975
Pharm GKB GenePA37237
Clinical trialUSP13
Miscellaneous
canSAR (ICR)USP13 (select the gene name)
HarmonizomeUSP13
DataMed IndexUSP13
Probes
Litterature
PubMed58 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineUSP13
EVEXUSP13
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Sat Jul 11 20:18:01 CEST 2020
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