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Aliases for USP25 Gene

Aliases for USP25 Gene

  • Ubiquitin Specific Peptidase 25 2 3 5
  • Deubiquitinating Enzyme 25 3 4
  • Ubiquitin Thioesterase 25 3 4
  • USP On Chromosome 21 3 4
  • USP21 3 4
  • Ubiquitin-Specific Processing Protease 25 3
  • Ubiquitin-Specific-Processing Protease 25 4
  • Ubiquitin Carboxyl-Terminal Hydrolase 25 3
  • Ubiquitin Specific Protease 25 2
  • Ubiquitin Thiolesterase 25 3
  • EC 3.4.19.12 4
  • EC 3.1.2.15 58

External Ids for USP25 Gene

Previous GeneCards Identifiers for USP25 Gene

  • GC21P013766
  • GC21P016024
  • GC21P017102
  • GC21P002481

Summaries for USP25 Gene

Entrez Gene Summary for USP25 Gene

  • 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]

GeneCards Summary for USP25 Gene

USP25 (Ubiquitin Specific Peptidase 25) is a Protein Coding gene. Among its related pathways are Deubiquitination and Ubiquitin-Proteasome Dependent Proteolysis. GO annotations related to this gene include peptidase activity and thiol-dependent ubiquitin-specific protease activity. An important paralog of this gene is USP28.

UniProtKB/Swiss-Prot for USP25 Gene

  • Deubiquitinating enzyme that hydrolyzes ubiquitin moieties conjugated to substrates and thus, functions to process newly synthesized Ubiquitin, to recycle ubiquitin molecules or to edit polyubiquitin chains and prevents proteasomal degradation of substrates. Hydrolyzes both Lys-48- and Lys-63-linked tetraubiquitin chains.

  • The muscle-specific isoform (USP25m) may have a role in the regulation of muscular differentiation and function.

Additional gene information for USP25 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for USP25 Gene

Genomics for USP25 Gene

Regulatory Elements for USP25 Gene

Enhancers for USP25 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH21H015753 1.4 FANTOM5 Ensembl ENCODE 20.2 +23.9 23854 2 FOXA2 SAP130 MAX ZNF766 ZNF316 POLR2A NFE2 MAFK NFE2L2 GATAD2A USP25 RBPMSLP GC21P015884
GH21H015729 1.7 FANTOM5 Ensembl ENCODE 13.7 +2.9 2867 7 HDGF PKNOX1 ARNT ARID4B SIN3A FEZF1 YY1 ZNF302 ZNF143 FOS USP25 RBPMSLP
GH21H015788 0.8 Ensembl ENCODE 24.1 +59.2 59248 1 STAT1 PKNOX1 GATA3 JUN CEBPB FOXA1 USP25 RBPMSLP GC21P015884
GH21H015706 0.9 Ensembl ENCODE 20.1 -23.1 -23079 1 SMARCE1 JUN ELF1 DPF2 FOXA1 FOSL1 ZNF217 CTBP1 JUND GATA3 USP25 RAD23BP3
GH21H015826 0.8 ENCODE 19.3 +96.6 96599 0 CTCF FOXA2 ARNT CEBPG RAD21 RFX5 TEAD3 IRF9 ZNF316 SCRT2 USP25 GC21P015884 RBPMSLP
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around USP25 on UCSC Golden Path with GeneCards custom track

Promoters for USP25 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000140445 1153 3401 PKNOX1 ARNT ARID4B SIN3A BRCA1 YY1 TCF12 FOS JUNB REST

Genomic Location for USP25 Gene

Chromosome:
21
Start:
15,729,947 bp from pter
End:
15,880,072 bp from pter
Size:
150,126 bases
Orientation:
Plus strand

Genomic View for USP25 Gene

Genes around USP25 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
USP25 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for USP25 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for USP25 Gene

Proteins for USP25 Gene

  • Protein details for USP25 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9UHP3-UBP25_HUMAN
    Recommended name:
    Ubiquitin carboxyl-terminal hydrolase 25
    Protein Accession:
    Q9UHP3
    Secondary Accessions:
    • C0LSZ0
    • Q6DHZ9
    • Q9H9W1

    Protein attributes for USP25 Gene

    Size:
    1055 amino acids
    Molecular mass:
    122218 Da
    Quaternary structure:
    • Homodimer or oligomer. Interacts with ACTA1 (via its C-terminus); the interaction occurs for all isoforms but is strongest for isoform USP25m in muscle differentiating cells. Interacts (isoform USP25m only) with MYBPC1; the interaction prevents proteasomal degradation of MYBPC1. Interacts (isoform USP25m only) with FLNC (via filament repeats 17-18, 20-21 and 24). Interacts with GAPDH. Interacts with SUMO3; the interaction sumoylates efficiently USP25. Interacts with SUMO2; the interaction sumoylates efficiently USP25. Interacts with SUMO1; the interaction only weakly sumoylates USP25. Interacts with SYK; phosphorylates USP25 and regulates USP25 intracellular levels.

    Three dimensional structures from OCA and Proteopedia for USP25 Gene

    Alternative splice isoforms for USP25 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for USP25 Gene

Selected DME Specific Peptides for USP25 Gene

Q9UHP3:
  • QQQDVSEFTHKLLDWLEDAFQ
  • LHAVLVH
  • FGQYPLQVNG
  • LPPVLTFELSRFEFNQ

Post-translational modifications for USP25 Gene

  • Acetylated.
  • Phosphorylation in the C-terminal by SYK regulates USP25 cellular levels.
  • Preferentially monoubiquitinated but can also be polyubiquitinated. Autodeubiquitinated. Ubiquitination activates the enzymatic activity either by preventing sumoylation or by allowing novel interactions.
  • Sumoylation impairs binding to and hydrolysis of ubiquitin chains. Sumoylated preferentially with SUMO2 or SUMO3. Desumoylated by SENP1. Regulated by ubiquitination on the same residue.
  • Ubiquitination at Lys15, Lys201, posLast=250250, Lys254, Lys312, posLast=313313, posLast=392392, posLast=444444, Lys520, Lys584, posLast=630630, Lys698, Lys715, and Lys721
  • Modification sites at PhosphoSitePlus

Domains & Families for USP25 Gene

Gene Families for USP25 Gene

HGNC:
Human Protein Atlas (HPA):
  • Enzymes
  • Plasma proteins
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for USP25 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9UHP3

UniProtKB/Swiss-Prot:

UBP25_HUMAN :
  • Belongs to the peptidase C19 family.
Family:
  • Belongs to the peptidase C19 family.
genes like me logo Genes that share domains with USP25: view

Function for USP25 Gene

Molecular function for USP25 Gene

GENATLAS Biochemistry:
ubiquitin specific protease 25,expressed in testis,pancreas,kidney,liver,lung,brain,heart,skeletal muscle,encoding two alternatively spliced isoforms,deubiquitin enzyme family
UniProtKB/Swiss-Prot CatalyticActivity:
Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).
UniProtKB/Swiss-Prot Function:
Deubiquitinating enzyme that hydrolyzes ubiquitin moieties conjugated to substrates and thus, functions to process newly synthesized Ubiquitin, to recycle ubiquitin molecules or to edit polyubiquitin chains and prevents proteasomal degradation of substrates. Hydrolyzes both Lys-48- and Lys-63-linked tetraubiquitin chains.
UniProtKB/Swiss-Prot Function:
The muscle-specific isoform (USP25m) may have a role in the regulation of muscular differentiation and function.
UniProtKB/Swiss-Prot Induction:
The muscle-specific isoform (USP25m) is up-regulated during myocyte differentiation. Levels increase up to 100-fold towards completion of differentiation.

Enzyme Numbers (IUBMB) for USP25 Gene

Phenotypes From GWAS Catalog for USP25 Gene

Gene Ontology (GO) - Molecular Function for USP25 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004843 thiol-dependent ubiquitin-specific protease activity IMP 18538659
GO:0005515 protein binding IPI 18538659
GO:0008233 peptidase activity TAS 10644437
GO:0008234 cysteine-type peptidase activity IEA --
GO:0016787 hydrolase activity IEA --
genes like me logo Genes that share ontologies with USP25: view
genes like me logo Genes that share phenotypes with USP25: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for USP25
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for USP25 Gene

Localization for USP25 Gene

Subcellular locations from UniProtKB/Swiss-Prot for USP25 Gene

Cytoplasm.
Isoform USP25m: Cytoplasm. Nucleus. Note=Some transient punctuate nuclear location in myotubes during myocyte development. {ECO:0000250}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for USP25 gene
Compartment Confidence
endoplasmic reticulum 5
cytosol 5
nucleus 4
mitochondrion 2
peroxisome 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for USP25 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm IEA --
GO:0005783 endoplasmic reticulum IDA 22590560
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with USP25: view

Pathways & Interactions for USP25 Gene

genes like me logo Genes that share pathways with USP25: view

Pathways by source for USP25 Gene

Gene Ontology (GO) - Biological Process for USP25 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006464 cellular protein modification process TAS 10644437
GO:0006508 proteolysis TAS 10644437
GO:0006511 ubiquitin-dependent protein catabolic process IEA --
GO:0016579 protein deubiquitination IDA,TAS --
GO:0070536 protein K63-linked deubiquitination IMP 18538659
genes like me logo Genes that share ontologies with USP25: view

No data available for SIGNOR curated interactions for USP25 Gene

Drugs & Compounds for USP25 Gene

(1) Drugs for USP25 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Water Approved Pharma 0
genes like me logo Genes that share compounds with USP25: view

Transcripts for USP25 Gene

Unigene Clusters for USP25 Gene

Ubiquitin specific peptidase 25:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for USP25
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for USP25 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9a · 9b ^ 10a · 10b · 10c ^ 11 ^ 12a · 12b ^ 13 ^ 14 ^ 15 ^ 16 ^ 17a · 17b ^ 18 ^ 19 ^ 20 ^
SP1: - -
SP2: - - -
SP3: - - - - - - - - - - - - - - - - - -
SP4:
SP5: -
SP6: -
SP7: -
SP8:
SP9:

ExUns: 21 ^ 22 ^ 23 ^ 24 ^ 25a · 25b ^ 26a · 26b
SP1: -
SP2: -
SP3: - - -
SP4: -
SP5:
SP6:
SP7:
SP8:
SP9:

Relevant External Links for USP25 Gene

GeneLoc Exon Structure for
USP25
ECgene alternative splicing isoforms for
USP25

Expression for USP25 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for USP25 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for USP25 Gene

This gene is overexpressed in Muscle - Skeletal (x4.7).

Protein differential expression in normal tissues from HIPED for USP25 Gene

This gene is overexpressed in Lymph node (13.9), Monocytes (8.8), Plasma (7.6), and CD8 Tcells (6.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for USP25 Gene



NURSA nuclear receptor signaling pathways regulating expression of USP25 Gene:

USP25

SOURCE GeneReport for Unigene cluster for USP25 Gene:

Hs.743994

mRNA Expression by UniProt/SwissProt for USP25 Gene:

Q9UHP3-UBP25_HUMAN
Tissue specificity: Isoform USP25a is found in most adult and fetal tissues; expression is moderately high in testis, pancreas, kidney, skeletal muscle, liver, lung, placenta, brain, heart, but very low in peripheral blood, colon, small intestine, ovary, prostate, thymus and spleen. Isoform USP25b is found in all tissues except heart and skeletal muscle. Isoform USP25m is heart and skeletal muscle specific.

Evidence on tissue expression from TISSUES for USP25 Gene

  • Nervous system(4.3)
  • Muscle(2)
genes like me logo Genes that share expression patterns with USP25: view

Primer Products

No data available for Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for USP25 Gene

Orthologs for USP25 Gene

This gene was present in the common ancestor of animals.

Orthologs for USP25 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia USP25 33 34
  • 99.69 (n)
dog
(Canis familiaris)
Mammalia USP25 33 34
  • 94.6 (n)
cow
(Bos Taurus)
Mammalia USP25 33 34
  • 93.71 (n)
rat
(Rattus norvegicus)
Mammalia Usp25 33
  • 87.79 (n)
mouse
(Mus musculus)
Mammalia Usp25 33 16 34
  • 86.9 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia USP25 34
  • 81 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia USP25 34
  • 80 (a)
OneToOne
chicken
(Gallus gallus)
Aves USP25 33 34
  • 81.97 (n)
lizard
(Anolis carolinensis)
Reptilia USP25 34
  • 65 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia usp25 33
  • 74.99 (n)
Str.4178 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.18074 33
zebrafish
(Danio rerio)
Actinopterygii usp25 33 34
  • 68.32 (n)
Dr.12045 33
worm
(Caenorhabditis elegans)
Secernentea K02C4.3 34
  • 17 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 35 (a)
OneToMany
Species where no ortholog for USP25 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for USP25 Gene

ENSEMBL:
Gene Tree for USP25 (if available)
TreeFam:
Gene Tree for USP25 (if available)

Paralogs for USP25 Gene

Paralogs for USP25 Gene

(1) SIMAP similar genes for USP25 Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with USP25: view

Variants for USP25 Gene

Sequence variations from dbSNP and Humsavar for USP25 Gene

SNP ID Clin Chr 21 pos Sequence Context AA Info Type
rs1000019297 -- 15,739,723(+) TTTTT(A/C)CTACA intron-variant
rs1000032276 -- 15,867,192(+) CACAT(G/T)TTTAA intron-variant
rs1000042006 -- 15,825,718(+) TCCCC(C/T)ATTTT intron-variant
rs1000046758 -- 15,784,496(+) GAACC(C/T)GGGAG intron-variant
rs1000057539 -- 15,866,945(+) TACCC(C/T)GTGGG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for USP25 Gene

Variant ID Type Subtype PubMed ID
dgv4390n100 CNV gain 25217958
esv275197 CNV gain+loss 21479260
esv2762093 CNV gain 21179565
esv3568111 CNV loss 25503493
nsv1132560 CNV duplication 24896259
nsv1133523 CNV deletion 24896259
nsv3461 CNV insertion 18451855
nsv3462 CNV insertion 18451855
nsv459099 CNV gain 19166990
nsv587076 CNV gain 21841781
nsv834050 CNV gain 17160897

Variation tolerance for USP25 Gene

Residual Variation Intolerance Score: 6.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.46; 54.96% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for USP25 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
USP25

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for USP25 Gene

Disorders for USP25 Gene

Relevant External Links for USP25

Genetic Association Database (GAD)
USP25
Human Genome Epidemiology (HuGE) Navigator
USP25
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
USP25

No disorders were found for USP25 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for USP25 Gene

Publications for USP25 Gene

  1. Functional interaction between the ubiquitin-specific protease 25 and the SYK tyrosine kinase. (PMID: 19909739) Cholay M … Daviet L (Experimental cell research 2010) 3 4 22 60
  2. Mechanism and consequences for paralog-specific sumoylation of ubiquitin-specific protease 25. (PMID: 18538659) Meulmeester E … Melchior F (Molecular cell 2008) 3 4 22 60
  3. The ubiquitin-specific protease USP25 interacts with three sarcomeric proteins. (PMID: 16501887) Bosch-Comas A … Marfany G (Cellular and molecular life sciences : CMLS 2006) 3 4 22 60
  4. Characterization of alternatively spliced products and tissue-specific isoforms of USP28 and USP25. (PMID: 11597335) Valero R … Marfany G (Genome biology 2001) 3 4 22 60
  5. Narrowing of the region of allelic loss in 21q11-21 in squamous non-small cell lung carcinoma and cloning of a novel ubiquitin-specific protease gene from the deleted segment. (PMID: 10612803) Groet J … Nizetic D (Genes, chromosomes & cancer 2000) 2 3 4 60

Products for USP25 Gene

Sources for USP25 Gene

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