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

    Gene ID: 29761, updated on 9-Dec-2024

    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
    NEW
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    Genomic context

    See USP25 in Genome Data Viewer
    Location:
    21q21.1
    Exon count:
    30
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 21 NC_000021.9 (15729982..15880064)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 21 NC_060945.1 (14085398..14235467)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 21 NC_000021.8 (17102301..17252383)

    Chromosome 21 - NC_000021.9Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA U13 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13219 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr21:17114626-17115270 Neighboring gene RAD23B pseudogene 3 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr21:17125262-17125887 Neighboring gene RNA binding protein with multiple splicing-like pseudogene Neighboring gene Sharpr-MPRA regulatory region 15533 Neighboring gene NANOG hESC enhancer GRCh37_chr21:17357279-17357780 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr21:17364583-17365782 Neighboring gene RNA, U6 small nuclear 426, pseudogene Neighboring gene mir-99a-let-7c cluster host gene Neighboring gene VDAC2 pseudogene 1

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

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

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    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 
    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

    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
    NP_001269971.1
    NP_001339489.1
    NP_001339490.1
    NP_001375228.1
    NP_001375229.1
    NP_001375230.1
    NP_001375231.1
    NP_037528.3
    XP_005261006.1
    XP_011527831.1
    XP_011527837.1
    XP_047296701.1
    XP_047296702.1
    XP_047296703.1
    XP_047296704.1
    XP_047296705.1
    XP_047296706.1
    XP_047296707.1
    XP_054180413.1
    XP_054180414.1
    XP_054180415.1
    XP_054180416.1
    XP_054180417.1
    XP_054180418.1
    XP_054180419.1
    XP_054180420.1
    XP_054180421.1
    XP_054180422.1
    XP_054180423.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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)

    1. NM_001283041.3NP_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:170655
      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:1560
      UBA_UBP25; UBA domain found in ubiquitin carboxyl-terminal hydrolase 25 (UBP25) and similar proteins
      pfam00443
      Location:168405
      UCH; Ubiquitin carboxyl-terminal hydrolase
    2. NM_001283042.3NP_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:170655
      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:1560
      UBA_UBP25; UBA domain found in ubiquitin carboxyl-terminal hydrolase 25 (UBP25) and similar proteins
      pfam00443
      Location:168405
      UCH; Ubiquitin carboxyl-terminal hydrolase
    3. NM_001352560.2NP_001339489.1  ubiquitin carboxyl-terminal hydrolase 25 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AJ010597, AJ010598, BM149594
      Conserved Domains (2) summary
      cd02665
      Location:37434
      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:547827
      USP25_C; carboxyl-terminal domain of ubiquitin-specific protease 25 (USP25)
    4. NM_001352561.2NP_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:163251
      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:364644
      USP25_C; carboxyl-terminal domain of ubiquitin-specific protease 25 (USP25)
    5. NM_001388299.1NP_001375228.1  ubiquitin carboxyl-terminal hydrolase 25 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AJ010597, AJ010598
      Conserved Domains (2) summary
      cd02665
      Location:37434
      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:547827
      USP25_C; carboxyl-terminal domain of ubiquitin-specific protease 25 (USP25)
    6. NM_001388300.1NP_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:163251
      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:364644
      USP25_C; carboxyl-terminal domain of ubiquitin-specific protease 25 (USP25)
    7. NM_001388301.1NP_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:163251
      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:364644
      USP25_C; carboxyl-terminal domain of ubiquitin-specific protease 25 (USP25)
    8. NM_001388302.1NP_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:163251
      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:361641
      USP25_C; carboxyl-terminal domain of ubiquitin-specific protease 25 (USP25)
    9. NM_013396.6NP_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:170655
      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:1560
      UBA_UBP25; UBA domain found in ubiquitin carboxyl-terminal hydrolase 25 (UBP25) and similar proteins
      cl02553
      Location:168298
      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_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000021.9 Reference GRCh38.p14 Primary Assembly

      Range
      15729982..15880064
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

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

      Conserved Domains (3) summary
      cd02665
      Location:170655
      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:1560
      UBA_UBP25; UBA domain found in ubiquitin carboxyl-terminal hydrolase 25 (UBP25) and similar proteins
      pfam00443
      Location:168405
      UCH; Ubiquitin carboxyl-terminal hydrolase
    2. XM_047440749.1XP_047296705.1  ubiquitin carboxyl-terminal hydrolase 25 isoform X5

    3. XM_047440751.1XP_047296707.1  ubiquitin carboxyl-terminal hydrolase 25 isoform X7

    4. XM_011529535.3XP_011527837.1  ubiquitin carboxyl-terminal hydrolase 25 isoform X8

      Conserved Domains (4) summary
      cd02665
      Location:170399
      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:1560
      UBA_UBP25; UBA domain found in ubiquitin carboxyl-terminal hydrolase 25 (UBP25) and similar proteins
      cl02553
      Location:168298
      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:168405
      UCH; Ubiquitin carboxyl-terminal hydrolase
    5. XM_047440745.1XP_047296701.1  ubiquitin carboxyl-terminal hydrolase 25 isoform X2

    6. XM_047440746.1XP_047296702.1  ubiquitin carboxyl-terminal hydrolase 25 isoform X3

    7. XM_047440748.1XP_047296704.1  ubiquitin carboxyl-terminal hydrolase 25 isoform X4

    8. XM_047440747.1XP_047296703.1  ubiquitin carboxyl-terminal hydrolase 25 isoform X4

    9. XM_005260949.5XP_005261006.1  ubiquitin carboxyl-terminal hydrolase 25 isoform X6

      Conserved Domains (1) summary
      cl02553
      Location:163251
      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 ...
    10. XM_047440750.1XP_047296706.1  ubiquitin carboxyl-terminal hydrolase 25 isoform X6

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060945.1 Alternate T2T-CHM13v2.0

      Range
      14085398..14235467
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054324439.1XP_054180414.1  ubiquitin carboxyl-terminal hydrolase 25 isoform X1

    2. XM_054324444.1XP_054180419.1  ubiquitin carboxyl-terminal hydrolase 25 isoform X5

    3. XM_054324447.1XP_054180422.1  ubiquitin carboxyl-terminal hydrolase 25 isoform X7

    4. XM_054324448.1XP_054180423.1  ubiquitin carboxyl-terminal hydrolase 25 isoform X8

    5. XM_054324438.1XP_054180413.1  ubiquitin carboxyl-terminal hydrolase 25 isoform X9

    6. XM_054324440.1XP_054180415.1  ubiquitin carboxyl-terminal hydrolase 25 isoform X2

    7. XM_054324441.1XP_054180416.1  ubiquitin carboxyl-terminal hydrolase 25 isoform X3

    8. XM_054324443.1XP_054180418.1  ubiquitin carboxyl-terminal hydrolase 25 isoform X4

    9. XM_054324442.1XP_054180417.1  ubiquitin carboxyl-terminal hydrolase 25 isoform X4

    10. XM_054324446.1XP_054180421.1  ubiquitin carboxyl-terminal hydrolase 25 isoform X6

    11. XM_054324445.1XP_054180420.1  ubiquitin carboxyl-terminal hydrolase 25 isoform X6