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| Open reading frame (ORF) annotation in the exon skipping event |
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| 3'-UTR located exon skipping events lost miRNA binding sites |
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| Splicing Quantitative Trait Loci (sQTLs) in the skipped exons |
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Gene summary for USP10 |
 Gene summary |
| Gene information | Gene symbol | USP10 | Gene ID | 9100 |
| Gene name | ubiquitin specific peptidase 10 | |
| Synonyms | UBPO | |
| Cytomap | 16q24.1 | |
| Type of gene | protein-coding | |
| Description | ubiquitin carboxyl-terminal hydrolase 10deubiquitinating enzyme 10ubiquitin specific protease 10ubiquitin thioesterase 10ubiquitin thiolesterase 10ubiquitin-specific-processing protease 10 | |
| Modification date | 20200327 | |
| UniProtAcc | ||
| Context | - 31332267(USP10 is a critical factor for Tau-positive stress granule formation in neuronal cells) |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| USP10 | GO:0010506 | regulation of autophagy | 21962518 |
| USP10 | GO:0016579 | protein deubiquitination | 20096447 |
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Gene structures and expression levels for USP10 |
| Skipped exons in the ROSMAP, MSBB, and Mayo based on Ensembl gene isoform structure. * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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ENSG00000103194
| Differentially expressed gene analysis across multiple brain tissues between AD and control. |
| Tissue type | DEG direction | Base mean exp. | log2FC(AD/control) | P-value | Adj. p-value |
| Differentially expressed isoform analysis across multiple brain tissues between AD and control. |
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| Tissue type | DEG direction | ENST | Transcript info. | Base mean exp. | log2FC(AD/control) | P-value | Adjc. p-value |
| PG | UP | ENST00000569038.5 | USP10-215:protein_coding:USP10 | 2.669794e+00 | 3.641226e+00 | 4.497673e-04 | 8.194671e-03 |
| CB | UP | ENST00000566378.1 | USP10-212:retained_intron:USP10 | 6.827892e+00 | 9.642156e-01 | 2.807309e-11 | 2.244380e-09 |
| CB | UP | ENST00000567526.1 | USP10-214:protein_coding:USP10 | 3.036524e+00 | 8.461777e-01 | 9.897585e-04 | 5.120344e-03 |
| TC | DOWN | ENST00000468085.5 | DUSP10-202:nonsense_mediated_decay:DUSP10 | 2.941150e+01 | -1.722264e+00 | 3.415401e-05 | 6.848526e-04 |
| Landscape of isoform expressions across multiple brain tissues between AD and control. |
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Exon skipping events with PSIs in ROSMAP, MSBB, and Mayo for USP10 |
| Landscape of individual exon skipping event across AD tissues and controls (PSI heatmap). |
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| All exon skipping events in AD cohorts. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon |
| exon_skip_112563 | chr16 | 84700040:84700111:84733053:84733105:84733448:84733503 | 84733053:84733105 |
| exon_skip_130888 | chr16 | 84700004:84700111:84704740:84704860:84733435:84733503 | 84704740:84704860 |
| exon_skip_132246 | chr16 | 84733448:84733503:84740309:84740369:84744633:84744780 | 84740309:84740369 |
| exon_skip_133796 | chr16 | 84700040:84700111:84733053:84733105:84733435:84733503 | 84733053:84733105 |
| exon_skip_163277 | chr16 | 84700040:84700111:84732468:84732589:84733435:84733503 | 84732468:84732589 |
| exon_skip_167212 | chr16 | 84700040:84700111:84704740:84704860:84716195:84716518 | 84704740:84704860 |
| exon_skip_182494 | chr16 | 84733209:84733503:84740309:84740369:84744633:84744911 | 84740309:84740369 |
| exon_skip_191066 | chr16 | 84700040:84700111:84733435:84733503:84740309:84740312 | 84733435:84733503 |
| exon_skip_192234 | chr16 | 84700040:84700111:84733435:84733503:84758716:84758807 | 84733435:84733503 |
| exon_skip_194433 | chr16 | 84700004:84700111:84733053:84733105:84733435:84733503 | 84733053:84733105 |
| exon_skip_19974 | chr16 | 84700040:84700111:84733435:84733503:84744633:84744780 | 84733435:84733503 |
| exon_skip_217044 | chr16 | 84733448:84733503:84740309:84740369:84758716:84758807 | 84740309:84740369 |
| exon_skip_220593 | chr16 | 84768267:84768358:84772541:84772685:84775160:84775225 | 84772541:84772685 |
| exon_skip_267420 | chr16 | 84700040:84700111:84704740:84704860:84733435:84733503 | 84704740:84704860 |
| exon_skip_291689 | chr16 | 84740309:84740369:84744633:84745673:84758716:84758807 | 84744633:84745673 |
| exon_skip_33598 | chr16 | 84733455:84733503:84740309:84740369:84744633:84744780 | 84740309:84740369 |
| exon_skip_5401 | chr16 | 84772541:84772685:84775160:84775225:84778895:84778987 | 84775160:84775225 |
| exon_skip_58285 | chr16 | 84768267:84768358:84772541:84772685:84778895:84778987 | 84772541:84772685 |
| exon_skip_59262 | chr16 | 84744633:84745673:84759891:84759946:84760172:84760236 | 84759891:84759946 |
| exon_skip_71600 | chr16 | 84768267:84768358:84775160:84775225:84778895:84778987 | 84775160:84775225 |
| exon_skip_9609 | chr16 | 84700040:84700111:84704740:84704860:84716195:84716258 | 84704740:84704860 |
| Differentially expressed PSI values of individual exon skipping events in multiple brain tissues between AD and control. |
| Exon skipping information | Tissue type | Avg(PSIs) in AD | Avg(PSIs) in control | Difference (PSI) | Adj. p-value |
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Open reading frame (ORF) annotation in the exon skipping event for USP10 |
| Open reading frame (ORF) of individual exon skipping events in ROSMAP based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000219473 | 84740309 | 84740369 | Frame-shift |
| ENST00000219473 | 84772541 | 84772685 | Frame-shift |
| ENST00000219473 | 84744633 | 84745673 | In-frame |
| ENST00000219473 | 84775160 | 84775225 | In-frame |
| Open reading frame (ORF) of individual exon skipping events in MSBB based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000219473 | 84740309 | 84740369 | Frame-shift |
| ENST00000219473 | 84772541 | 84772685 | Frame-shift |
| ENST00000219473 | 84775160 | 84775225 | In-frame |
| Open reading frame (ORF) of individual exon skipping events in Mayo based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000219473 | 84740309 | 84740369 | Frame-shift |
| ENST00000219473 | 84772541 | 84772685 | Frame-shift |
| ENST00000219473 | 84744633 | 84745673 | In-frame |
| ENST00000219473 | 84775160 | 84775225 | In-frame |
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Infer the effects of exon skipping event on protein functional features for USP10 |
p-ENSG00000103194_img4.png |
| Loci of skipped exons in ROSMAP across genomic, transcript, and protein sequence levels of In-frame cases. |
| ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
| ENST00000219473 | 3026 | 798 | 84744633 | 84745673 | 266 | 1305 | 51 | 397 |
| ENST00000219473 | 3026 | 798 | 84775160 | 84775225 | 2258 | 2322 | 715 | 736 |
| Loci of skipped exons in MSBB across genomic, transcript, and protein sequence levels of In-frame cases. |
| ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
| ENST00000219473 | 3026 | 798 | 84775160 | 84775225 | 2258 | 2322 | 715 | 736 |
| Loci of skipped exons in Mayo across genomic, transcript, and protein sequence levels of In-frame cases. |
| ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
| ENST00000219473 | 3026 | 798 | 84744633 | 84745673 | 266 | 1305 | 51 | 397 |
| ENST00000219473 | 3026 | 798 | 84775160 | 84775225 | 2258 | 2322 | 715 | 736 |
| Lost protein functional features of individual exon skipping events in ROSMAP. |
| UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
| Q14694 | 51 | 397 | 2 | 798 | Chain | ID=PRO_0000080629;Note=Ubiquitin carboxyl-terminal hydrolase 10 |
| Q14694 | 51 | 397 | 100 | 100 | Modified residue | Note=Phosphothreonine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:18669648;Dbxref=PMID:18669648 |
| Q14694 | 51 | 397 | 211 | 211 | Modified residue | Note=Phosphoserine;Ontology_term=ECO:0000250;evidence=ECO:0000250|UniProtKB:P52479 |
| Q14694 | 51 | 397 | 226 | 226 | Modified residue | Note=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:18669648;Dbxref=PMID:18669648 |
| Q14694 | 51 | 397 | 321 | 321 | Modified residue | Note=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:24275569;Dbxref=PMID:24275569 |
| Q14694 | 51 | 397 | 337 | 337 | Modified residue | Note=Phosphoserine%3B by ATM;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:20096447;Dbxref=PMID:20096447 |
| Q14694 | 51 | 397 | 365 | 365 | Modified residue | Note=Phosphoserine;Ontology_term=ECO:0000244,ECO:0000244,ECO:0000244;evidence=ECO:0000244|PubMed:16964243,ECO:0000244|PubMed:20068231,ECO:0000244|PubMed:24275569;Dbxref=PMID:16964243,PMID:20068231,PMID:24275569 |
| Q14694 | 51 | 397 | 370 | 370 | Modified residue | Note=Phosphoserine;Ontology_term=ECO:0000244,ECO:0000244,ECO:0000244,ECO:0000244;evidence=ECO:0000244|PubMed:16964243,ECO:0000244|PubMed:18669648,ECO:0000244|PubMed:20068231,ECO:0000244|PubMed:23186163;Dbxref=PMID:16964243,PMID:18669648,PMID:20068231,PMID |
| Q14694 | 51 | 397 | 337 | 337 | Mutagenesis | Note=Abolishes phosphorylation by ATM%3B when associated with A-42. S->A;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:20096447;Dbxref=PMID:20096447 |
| Q14694 | 51 | 397 | 337 | 337 | Mutagenesis | Note=Phospho-mimetic mutant that translocates to the nucleus in absence of genotoxic stress%3B when associated with E-42. S->D;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:20096447;Dbxref=PMID:20096447 |
| Q14694 | 51 | 397 | 200 | 200 | Natural variant | ID=VAR_015859;Note=M->V;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:17974005;Dbxref=dbSNP:rs1862792,PMID:17974005 |
| Q14694 | 51 | 397 | 203 | 203 | Natural variant | ID=VAR_015860;Note=S->P;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:15489334;Dbxref=dbSNP:rs2326391,PMID:15489334 |
| Q14694 | 51 | 397 | 204 | 204 | Natural variant | ID=VAR_015861;Note=V->L;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:15489334;Dbxref=dbSNP:rs1812061,PMID:15489334 |
| Q14694 | 51 | 397 | 2 | 100 | Region | Note=Interaction with p53/TP53;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:20096447;Dbxref=PMID:20096447 |
| Q14694 | 51 | 397 | 108 | 108 | Sequence conflict | Note=A->V;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| Q14694 | 51 | 397 | 263 | 263 | Sequence conflict | Note=T->A;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| Q14694 | 715 | 736 | 2 | 798 | Chain | ID=PRO_0000080629;Note=Ubiquitin carboxyl-terminal hydrolase 10 |
| Q14694 | 715 | 736 | 415 | 795 | Domain | Note=USP |
| Lost protein functional features of individual exon skipping events in MSBB. |
| UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
| Q14694 | 715 | 736 | 2 | 798 | Chain | ID=PRO_0000080629;Note=Ubiquitin carboxyl-terminal hydrolase 10 |
| Q14694 | 715 | 736 | 415 | 795 | Domain | Note=USP |
| Lost protein functional features of individual exon skipping events in Mayo. |
| UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
| Q14694 | 51 | 397 | 2 | 798 | Chain | ID=PRO_0000080629;Note=Ubiquitin carboxyl-terminal hydrolase 10 |
| Q14694 | 51 | 397 | 100 | 100 | Modified residue | Note=Phosphothreonine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:18669648;Dbxref=PMID:18669648 |
| Q14694 | 51 | 397 | 211 | 211 | Modified residue | Note=Phosphoserine;Ontology_term=ECO:0000250;evidence=ECO:0000250|UniProtKB:P52479 |
| Q14694 | 51 | 397 | 226 | 226 | Modified residue | Note=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:18669648;Dbxref=PMID:18669648 |
| Q14694 | 51 | 397 | 321 | 321 | Modified residue | Note=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:24275569;Dbxref=PMID:24275569 |
| Q14694 | 51 | 397 | 337 | 337 | Modified residue | Note=Phosphoserine%3B by ATM;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:20096447;Dbxref=PMID:20096447 |
| Q14694 | 51 | 397 | 365 | 365 | Modified residue | Note=Phosphoserine;Ontology_term=ECO:0000244,ECO:0000244,ECO:0000244;evidence=ECO:0000244|PubMed:16964243,ECO:0000244|PubMed:20068231,ECO:0000244|PubMed:24275569;Dbxref=PMID:16964243,PMID:20068231,PMID:24275569 |
| Q14694 | 51 | 397 | 370 | 370 | Modified residue | Note=Phosphoserine;Ontology_term=ECO:0000244,ECO:0000244,ECO:0000244,ECO:0000244;evidence=ECO:0000244|PubMed:16964243,ECO:0000244|PubMed:18669648,ECO:0000244|PubMed:20068231,ECO:0000244|PubMed:23186163;Dbxref=PMID:16964243,PMID:18669648,PMID:20068231,PMID |
| Q14694 | 51 | 397 | 337 | 337 | Mutagenesis | Note=Abolishes phosphorylation by ATM%3B when associated with A-42. S->A;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:20096447;Dbxref=PMID:20096447 |
| Q14694 | 51 | 397 | 337 | 337 | Mutagenesis | Note=Phospho-mimetic mutant that translocates to the nucleus in absence of genotoxic stress%3B when associated with E-42. S->D;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:20096447;Dbxref=PMID:20096447 |
| Q14694 | 51 | 397 | 200 | 200 | Natural variant | ID=VAR_015859;Note=M->V;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:17974005;Dbxref=dbSNP:rs1862792,PMID:17974005 |
| Q14694 | 51 | 397 | 203 | 203 | Natural variant | ID=VAR_015860;Note=S->P;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:15489334;Dbxref=dbSNP:rs2326391,PMID:15489334 |
| Q14694 | 51 | 397 | 204 | 204 | Natural variant | ID=VAR_015861;Note=V->L;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:15489334;Dbxref=dbSNP:rs1812061,PMID:15489334 |
| Q14694 | 51 | 397 | 2 | 100 | Region | Note=Interaction with p53/TP53;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:20096447;Dbxref=PMID:20096447 |
| Q14694 | 51 | 397 | 108 | 108 | Sequence conflict | Note=A->V;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| Q14694 | 51 | 397 | 263 | 263 | Sequence conflict | Note=T->A;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| Q14694 | 715 | 736 | 2 | 798 | Chain | ID=PRO_0000080629;Note=Ubiquitin carboxyl-terminal hydrolase 10 |
| Q14694 | 715 | 736 | 415 | 795 | Domain | Note=USP |
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3'-UTR located exon skipping events that lost miRNA binding sites in USP10 |
| 3'-UTR exon skipping evnets lost miRNA binding. |
| Tissue type | ENST | Exon skip start | Exon skip end | microRNA | Binding site by TargetScan | Binding type by TargetScan | Bdinding site by miRanda | Score of miRanda | Energy by miRanda |
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SNVs in the skipped exons for USP10 |
| - Differential PSIs between mutated versus non-mutated samples. |
| - Depth of Coverage in the skipped exon of the mutated samples. |
| - Sashimi plot in the skipped exon of the mutated samples. |
| - Non-synonymous mutations located in the skipped exons. |
| Cancer type | Sample | ESID | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
| - Non-synonymous mutations located in the skipped exons in CCLE. |
| Sample | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
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AD stage-associated exon skippint events for USP10 |
| Associated exon skipping events with Braak staging or Clinical Dementia Rating (CDR). |
| AD stage info | Cohort | Tissue | SE id | Coefficient | P-value | Chromosome | Strand | E1 start | E1 end | Skipped start | Skipped end | E2 start | E2 end |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for USP10 |
| sQTL information located at the skipped exons. |
| Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
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Correlation with RNA binding proteins (RBPs) for USP10 |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
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RelatedDrugs for USP10 |
| Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
| UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for USP10 |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
Copyright 2018-Present -The University of Texas Health Science Center at Houston (UTHealth)
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