USP25 ubiquitin specific peptidase 25 [Homo sapiens (human)] - Gene

Summary

Official Symbol: USP25provided by HGNC
Official Full Name: ubiquitin specific peptidase 25provided by HGNC
Primary source: HGNC:HGNC:12624
See related: Ensembl:ENSG00000155313 MIM:604736; AllianceGenome:HGNC:12624
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: USP21
Summary: Ubiquitin (MIM 191339) is a highly conserved 76-amino acid protein involved in regulation of intracellular protein breakdown, cell cycle regulation, and stress response. Ubiquitin is released from degraded proteins by disassembly of the polyubiquitin chains, which is mediated by ubiquitin-specific proteases (USPs), such as USP25 (Valero et al., 1999 [PubMed 10644437]).[supplied by OMIM, Mar 2008]
Expression: Ubiquitous expression in testis (RPKM 20.1), endometrium (RPKM 11.0) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 21q21.1

Exon count:: 30

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	21	NC_000021.9 (15729982..15880064)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	21	NC_060945.1 (14085398..14235467)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	21	NC_000021.8 (17102301..17252383)

Chromosome 21 - NC_000021.9 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Usp25-Erlin1/2 activity limits cholesterol flux to restrict virus infection.
Title: Usp25-Erlin1/2 activity limits cholesterol flux to restrict virus infection.
USP25 promotes hepatocellular carcinoma progression by interacting with TRIM21 via the Wnt/beta-catenin signaling pathway.
Title: USP25 promotes hepatocellular carcinoma progression by interacting with TRIM21 via the Wnt/β-catenin signaling pathway.
USP25 inhibits renal fibrosis by regulating TGFbeta-SMAD signaling pathway in Ang II-induced hypertensive mice.
Title: USP25 inhibits renal fibrosis by regulating TGFβ-SMAD signaling pathway in Ang II-induced hypertensive mice.
USP25 contributes to defective neurogenesis and cognitive impairments.
Title: USP25 contributes to defective neurogenesis and cognitive impairments.
Regulation of USP25 by SP1 Associates with Amyloidogenesis.
Title: Regulation of USP25 by SP1 Associates with Amyloidogenesis.
USP25 UPREGULATION BOOSTS GSDMD -MEDIATED PYROPTOSIS OF ACINAR CELLS IN ACUTE PANCREATITIS.
Title: USP25 UPREGULATION BOOSTS GSDMD -MEDIATED PYROPTOSIS OF ACINAR CELLS IN ACUTE PANCREATITIS.
Downregulation of deubiquitinating enzyme USP25 promotes the development of allergic rhinitis by enhancing TSLP signaling in the nasal epithelium.
Title: Downregulation of deubiquitinating enzyme USP25 promotes the development of allergic rhinitis by enhancing TSLP signaling in the nasal epithelium.
Deubiquitination of TNKS1 Regulates Wnt/beta-Catenin to Affect the Expression of USP25 to Promote the Progression of Glioma.
Title: Deubiquitination of TNKS1 Regulates Wnt/β-Catenin to Affect the Expression of USP25 to Promote the Progression of Glioma.
The deubiquitinase USP25 supports colonic inflammation and bacterial infection and promotes colorectal cancer.
Title: The deubiquitinase USP25 supports colonic inflammation and bacterial infection and promotes colorectal cancer.
USP25 Regulates EGFR Fate by Modulating EGF-Induced Ubiquitylation Dynamics.
Title: USP25 Regulates EGFR Fate by Modulating EGF-Induced Ubiquitylation Dynamics.

Submit: New GeneRIF Correction See all GeneRIFs (35)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association study of panic disorder in the Japanese population. EBI GWAS Catalog EBI GWAS CatalogPubMed
Web-based genome-wide association study identifies two novel loci and a substantial genetic component for Parkinson's disease. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

G34705 (e-PCR)
- UniSTS:56119

SHGC-52068 (e-PCR)
- UniSTS:5951

D21S382 (e-PCR)
- UniSTS:147851

RH36201 (e-PCR)
- UniSTS:87504

PMC57798P1 (e-PCR)
- UniSTS:273366

D21S1830 (e-PCR)
- UniSTS:60905

G19905 (e-PCR)
- UniSTS:5619

A002B43 (e-PCR)
- UniSTS:5620

D21S189 (e-PCR)
- UniSTS:148731

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables ATPase binding	IPI Inferred from Physical Interaction more info	PubMed
enables SUMO binding	IBA Inferred from Biological aspect of Ancestor more info
enables SUMO binding	IPI Inferred from Physical Interaction more info	PubMed
enables cysteine-type deubiquitinase activity	IBA Inferred from Biological aspect of Ancestor more info
enables cysteine-type deubiquitinase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables cysteine-type deubiquitinase activity	TAS Traceable Author Statement more info
enables deubiquitinase activity	IDA Inferred from Direct Assay more info	PubMed
enables peptidase activity	TAS Traceable Author Statement more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables ubiquitin binding	NAS Non-traceable Author Statement more info	PubMed
enables ubiquitin protein ligase binding	IPI Inferred from Physical Interaction more info	PubMed
enables ubiquitin-like protein peptidase activity	NAS Non-traceable Author Statement more info	PubMed

Process	Evidence Code	Pubs
involved_in negative regulation of ERAD pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of interleukin-17-mediated signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of response to oxidative stress	IDA Inferred from Direct Assay more info	PubMed
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	IEA Inferred from Electronic Annotation more info
involved_in protein K48-linked deubiquitination	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein K63-linked deubiquitination	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein deubiquitination	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein deubiquitination	IDA Inferred from Direct Assay more info	PubMed
involved_in protein modification process	TAS Traceable Author Statement more info	PubMed
involved_in proteolysis	TAS Traceable Author Statement more info	PubMed
involved_in regulation of protein stability	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	IDA Inferred from Direct Assay more info
located_in cytosol	TAS Traceable Author Statement more info
located_in endoplasmic reticulum	IDA Inferred from Direct Assay more info	PubMed
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: ubiquitin carboxyl-terminal hydrolase 25

Names: USP on chromosome 21; deubiquitinating enzyme 25; ubiquitin thioesterase 25; ubiquitin thiolesterase 25; ubiquitin-specific processing protease 25

NP_001269970.1

EC 3.4.19.12

NP_001269971.1

EC 3.4.19.12

NP_001339489.1

EC 3.4.19.12

NP_001339490.1

EC 3.4.19.12

NP_001375228.1

EC 3.4.19.12

NP_001375229.1

EC 3.4.19.12

NP_001375230.1

EC 3.4.19.12

NP_001375231.1

EC 3.4.19.12

NP_037528.3

EC 3.4.19.12

XP_005261006.1

EC 3.4.19.12

XP_011527831.1

EC 3.4.19.12

XP_011527837.1

EC 3.4.19.12

XP_047296701.1

EC 3.4.19.12

XP_047296702.1

EC 3.4.19.12

XP_047296703.1

EC 3.4.19.12

XP_047296704.1

EC 3.4.19.12

XP_047296705.1

EC 3.4.19.12

XP_047296706.1

EC 3.4.19.12

XP_047296707.1

EC 3.4.19.12

XP_054180413.1

EC 3.4.19.12

XP_054180414.1

EC 3.4.19.12

XP_054180415.1

EC 3.4.19.12

XP_054180416.1

EC 3.4.19.12

XP_054180417.1

EC 3.4.19.12

XP_054180418.1

EC 3.4.19.12

XP_054180419.1

EC 3.4.19.12

XP_054180420.1

EC 3.4.19.12

XP_054180421.1

EC 3.4.19.12

XP_054180422.1

EC 3.4.19.12

XP_054180423.1

EC 3.4.19.12

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001283041.3 → NP_001269970.1 ubiquitin carboxyl-terminal hydrolase 25 isoform USP25m

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (USP25m).

Source sequence(s)

AJ010597, AJ010598, BC075792, BM149594, FJ763652

Consensus CDS

CCDS63336.1

UniProtKB/Swiss-Prot

Q9UHP3

Related

ENSP00000383044.2, ENST00000400183.7

Conserved Domains (3) summary

cd02665
Location:170 → 655

Peptidase_C19I; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...

cd14354
Location:15 → 60

UBA_UBP25; UBA domain found in ubiquitin carboxyl-terminal hydrolase 25 (UBP25) and similar proteins

pfam00443
Location:168 → 405

UCH; Ubiquitin carboxyl-terminal hydrolase
NM_001283042.3 → NP_001269971.1 ubiquitin carboxyl-terminal hydrolase 25 isoform USP25b

See identical proteins and their annotated locations for NP_001269971.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 3' coding region, compared to variant 1, resulting in an isoform (USP25b) that is shorter than isoform a.

Source sequence(s)

AF170562, AJ010597, AJ010598, BC075792, BM149594

Consensus CDS

CCDS63337.1

UniProtKB/Swiss-Prot

Q9UHP3

Related

ENSP00000285681.2, ENST00000285681.6

Conserved Domains (3) summary

cd02665
Location:170 → 655

Peptidase_C19I; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...

cd14354
Location:15 → 60

UBA_UBP25; UBA domain found in ubiquitin carboxyl-terminal hydrolase 25 (UBP25) and similar proteins

pfam00443
Location:168 → 405

UCH; Ubiquitin carboxyl-terminal hydrolase
NM_001352560.2 → NP_001339489.1 ubiquitin carboxyl-terminal hydrolase 25 isoform 4

Status: VALIDATED

Source sequence(s)

AJ010597, AJ010598, BM149594

Conserved Domains (2) summary

cd02665
Location:37 → 434

Peptidase_C19I; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...

cd20486
Location:547 → 827

USP25_C; carboxyl-terminal domain of ubiquitin-specific protease 25 (USP25)
NM_001352561.2 → NP_001339490.1 ubiquitin carboxyl-terminal hydrolase 25 isoform 5

Status: VALIDATED

Source sequence(s)

AJ010597, AJ010598, BM149594

UniProtKB/TrEMBL

Q9HA22

Conserved Domains (2) summary

cl02553
Location:163 → 251

Peptidase_C19; Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly ...

cd20486
Location:364 → 644

USP25_C; carboxyl-terminal domain of ubiquitin-specific protease 25 (USP25)
NM_001388299.1 → NP_001375228.1 ubiquitin carboxyl-terminal hydrolase 25 isoform 4

Status: VALIDATED

Source sequence(s)

AJ010597, AJ010598

Conserved Domains (2) summary

cd02665
Location:37 → 434

Peptidase_C19I; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...

cd20486
Location:547 → 827

USP25_C; carboxyl-terminal domain of ubiquitin-specific protease 25 (USP25)
NM_001388300.1 → NP_001375229.1 ubiquitin carboxyl-terminal hydrolase 25 isoform 5

Status: VALIDATED

Source sequence(s)

AJ010597, AJ010598

UniProtKB/TrEMBL

Q9HA22

Conserved Domains (2) summary

cl02553
Location:163 → 251

Peptidase_C19; Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly ...

cd20486
Location:364 → 644

USP25_C; carboxyl-terminal domain of ubiquitin-specific protease 25 (USP25)
NM_001388301.1 → NP_001375230.1 ubiquitin carboxyl-terminal hydrolase 25 isoform 5

Status: VALIDATED

Source sequence(s)

AJ010597, AJ010598

UniProtKB/TrEMBL

Q9HA22

Conserved Domains (2) summary

cl02553
Location:163 → 251

Peptidase_C19; Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly ...

cd20486
Location:364 → 644

USP25_C; carboxyl-terminal domain of ubiquitin-specific protease 25 (USP25)
NM_001388302.1 → NP_001375231.1 ubiquitin carboxyl-terminal hydrolase 25 isoform 6

Status: VALIDATED

Source sequence(s)

AJ010597, AJ010598

UniProtKB/TrEMBL

Q9HA22

Conserved Domains (2) summary

cl02553
Location:163 → 251

Peptidase_C19; Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly ...

cd20486
Location:361 → 641

USP25_C; carboxyl-terminal domain of ubiquitin-specific protease 25 (USP25)
NM_013396.6 → NP_037528.3 ubiquitin carboxyl-terminal hydrolase 25 isoform USP25a

See identical proteins and their annotated locations for NP_037528.3

Status: VALIDATED

Description

Transcript Variant: This variant (3) lacks two alternate in-frame exons in the 3' coding region, compared to variant 1, resulting in an isoform (USP25a) that is shorter than isoform a.

Source sequence(s)

AJ010597, AJ010598, BC075792, BM149594

Consensus CDS

CCDS33515.1

UniProtKB/Swiss-Prot

C0LSZ0, Q6DHZ9, Q9H9W1, Q9UHP3

Related

ENSP00000285679.6, ENST00000285679.10

Conserved Domains (3) summary

cd02665
Location:170 → 655

Peptidase_C19I; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...

cd14354
Location:15 → 60

UBA_UBP25; UBA domain found in ubiquitin carboxyl-terminal hydrolase 25 (UBP25) and similar proteins

cl02553
Location:168 → 298

Peptidase_C19; Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly ...

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000021.9 Reference GRCh38.p14 Primary Assembly

Range

15729982..15880064

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_011529529.2 → XP_011527831.1 ubiquitin carboxyl-terminal hydrolase 25 isoform X1

Conserved Domains (3) summary

cd02665
Location:170 → 655

Peptidase_C19I; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...

cd14354
Location:15 → 60

UBA_UBP25; UBA domain found in ubiquitin carboxyl-terminal hydrolase 25 (UBP25) and similar proteins

pfam00443
Location:168 → 405

UCH; Ubiquitin carboxyl-terminal hydrolase
XM_047440749.1 → XP_047296705.1 ubiquitin carboxyl-terminal hydrolase 25 isoform X5
XM_047440751.1 → XP_047296707.1 ubiquitin carboxyl-terminal hydrolase 25 isoform X7
XM_011529535.3 → XP_011527837.1 ubiquitin carboxyl-terminal hydrolase 25 isoform X8

Conserved Domains (4) summary

cd02665
Location:170 → 399

Peptidase_C19I; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...

cd14354
Location:15 → 60

UBA_UBP25; UBA domain found in ubiquitin carboxyl-terminal hydrolase 25 (UBP25) and similar proteins

cl02553
Location:168 → 298

Peptidase_C19; Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly ...

pfam00443
Location:168 → 405

UCH; Ubiquitin carboxyl-terminal hydrolase
XM_047440745.1 → XP_047296701.1 ubiquitin carboxyl-terminal hydrolase 25 isoform X2
XM_047440746.1 → XP_047296702.1 ubiquitin carboxyl-terminal hydrolase 25 isoform X3
XM_047440748.1 → XP_047296704.1 ubiquitin carboxyl-terminal hydrolase 25 isoform X4
XM_047440747.1 → XP_047296703.1 ubiquitin carboxyl-terminal hydrolase 25 isoform X4
XM_005260949.5 → XP_005261006.1 ubiquitin carboxyl-terminal hydrolase 25 isoform X6

Conserved Domains (1) summary

cl02553
Location:163 → 251

Peptidase_C19; Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly ...
XM_047440750.1 → XP_047296706.1 ubiquitin carboxyl-terminal hydrolase 25 isoform X6

Alternate T2T-CHM13v2.0

Genomic

NC_060945.1 Alternate T2T-CHM13v2.0

Range

14085398..14235467

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054324439.1 → XP_054180414.1 ubiquitin carboxyl-terminal hydrolase 25 isoform X1
XM_054324444.1 → XP_054180419.1 ubiquitin carboxyl-terminal hydrolase 25 isoform X5
XM_054324447.1 → XP_054180422.1 ubiquitin carboxyl-terminal hydrolase 25 isoform X7
XM_054324448.1 → XP_054180423.1 ubiquitin carboxyl-terminal hydrolase 25 isoform X8
XM_054324438.1 → XP_054180413.1 ubiquitin carboxyl-terminal hydrolase 25 isoform X9
XM_054324440.1 → XP_054180415.1 ubiquitin carboxyl-terminal hydrolase 25 isoform X2
XM_054324441.1 → XP_054180416.1 ubiquitin carboxyl-terminal hydrolase 25 isoform X3
XM_054324443.1 → XP_054180418.1 ubiquitin carboxyl-terminal hydrolase 25 isoform X4
XM_054324442.1 → XP_054180417.1 ubiquitin carboxyl-terminal hydrolase 25 isoform X4
XM_054324446.1 → XP_054180421.1 ubiquitin carboxyl-terminal hydrolase 25 isoform X6
XM_054324445.1 → XP_054180420.1 ubiquitin carboxyl-terminal hydrolase 25 isoform X6