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    USP42 ubiquitin specific peptidase 42 [ Homo sapiens (human) ]

    Gene ID: 84132, updated on 3-Dec-2024

    Summary

    Official Symbol
    USP42provided by HGNC
    Official Full Name
    ubiquitin specific peptidase 42provided by HGNC
    Primary source
    HGNC:HGNC:20068
    See related
    Ensembl:ENSG00000106346 MIM:620946; AllianceGenome:HGNC:20068
    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
    Summary
    Enables cysteine-type deubiquitinase activity. Predicted to be involved in protein deubiquitination and regulation of apoptotic process. Predicted to be located in nucleoplasm. Predicted to be active in cytosol and nucleus. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in testis (RPKM 9.2), bone marrow (RPKM 4.1) and 24 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See USP42 in Genome Data Viewer
    Location:
    7p22.1
    Exon count:
    31
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (6081241..6161564)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (6197991..6280940)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (6144580..6201195)

    Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene eukaryotic translation initiation factor 2 alpha kinase 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17932 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17933 Neighboring gene RNA, 7SL, cytoplasmic 851, pseudogene Neighboring gene RNA, U6 small nuclear 218, pseudogene Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr7:6116071-6116985 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr7:6116986-6117899 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17934 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:6141129-6141352 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:6143513-6144112 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17935 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17936 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17937 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr7:6189130-6190329 Neighboring gene cytohesin 3 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:6262905-6263525 Neighboring gene Sharpr-MPRA regulatory region 15593 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25619 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25620 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:6310870-6311592 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:6311593-6312314 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:6322371-6323253 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:6323254-6324135 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:6362882-6363382 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:6387689-6388190 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:6388191-6388690 Neighboring gene small integral membrane protein 10 like 3 Neighboring gene family with sequence similarity 220 member A

    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?

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ12697, AC004895.4

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables cysteine-type deubiquitinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables cysteine-type deubiquitinase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables cysteine-type deubiquitinase activity TAS
    Traceable Author Statement
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in cell differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in protein deubiquitination ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in protein deubiquitination TAS
    Traceable Author Statement
    more info
     
    involved_in proteolysis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of apoptotic process IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of protein stability IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in spermatogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    ubiquitin carboxyl-terminal hydrolase 42
    Names
    deubiquitinating enzyme 42
    ubiquitin specific protease 42
    ubiquitin thioesterase 42
    ubiquitin thiolesterase 42
    ubiquitin-specific-processing protease 42
    NP_001352693.1
    NP_001376579.1
    NP_115548.1
    XP_005249940.1
    XP_006715854.1
    XP_011513875.1
    XP_024302736.1
    XP_024302737.1
    XP_047276891.1
    XP_047276892.1
    XP_047276893.1
    XP_047276894.1
    XP_047276895.1
    XP_047276896.1
    XP_047276897.1
    XP_047276898.1
    XP_047276899.1
    XP_047276900.1
    XP_047276901.1
    XP_054215173.1
    XP_054215174.1
    XP_054215175.1
    XP_054215176.1
    XP_054215177.1
    XP_054215178.1
    XP_054215179.1
    XP_054215180.1
    XP_054215181.1
    XP_054215182.1
    XP_054215183.1
    XP_054215184.1
    XP_054215185.1
    XP_054215186.1
    XP_054215187.1

    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_001365764.1NP_001352693.1  ubiquitin carboxyl-terminal hydrolase 42 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC004895, AY618868, HY052239
      UniProtKB/Swiss-Prot
      A2RUE3, B5MDA5, Q0VIN8, Q3C166, Q6P9B4, Q9H9J4
      UniProtKB/TrEMBL
      A4D2N6
      Related
      ENST00000479544.6
      Conserved Domains (4) summary
      cd02661
      Location:110410
      Peptidase_C19E; 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 ...
      cl26386
      Location:735940
      DNA_pol3_gamma3; DNA polymerase III subunits gamma and tau domain III
      cl26464
      Location:422938
      Atrophin-1; Atrophin-1 family
      cl28310
      Location:8461113
      Rho; Transcription termination factor Rho [Transcription]
    2. NM_001389650.1NP_001376579.1  ubiquitin carboxyl-terminal hydrolase 42 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC004895
      UniProtKB/TrEMBL
      A4D2N6
      Conserved Domains (4) summary
      PHA03247
      Location:422938
      PHA03247; large tegument protein UL36; Provisional
      PRK07764
      Location:735940
      PRK07764; DNA polymerase III subunits gamma and tau; Validated
      PRK12678
      Location:8461113
      PRK12678; transcription termination factor Rho; Provisional
      cd02661
      Location:110410
      Peptidase_C19E; 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 ...
    3. NM_032172.3NP_115548.1  ubiquitin carboxyl-terminal hydrolase 42 isoform 2

      See identical proteins and their annotated locations for NP_115548.1

      Status: VALIDATED

      Source sequence(s)
      AA936550, BC132862, BF725643, BM995466, DB457216
      Consensus CDS
      CCDS47535.1
      UniProtKB/TrEMBL
      A4D2N6
      Related
      ENSP00000301962.5, ENST00000306177.10
      Conserved Domains (4) summary
      cd02661
      Location:110410
      Peptidase_C19E; 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 ...
      cl26386
      Location:735940
      DNA_pol3_gamma3; DNA polymerase III subunits gamma and tau domain III
      cl26464
      Location:422938
      Atrophin-1; Atrophin-1 family
      cl28310
      Location:8461113
      Rho; Transcription termination factor Rho [Transcription]

    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_000007.14 Reference GRCh38.p14 Primary Assembly

      Range
      6081241..6161564
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047420940.1XP_047276896.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/TrEMBL
      A4D2N6
    2. XM_047420938.1XP_047276894.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/TrEMBL
      A4D2N6
    3. XM_024446969.2XP_024302737.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/TrEMBL
      A4D2N6
      Conserved Domains (4) summary
      PHA03247
      Location:422938
      PHA03247; large tegument protein UL36; Provisional
      PRK07764
      Location:735940
      PRK07764; DNA polymerase III subunits gamma and tau; Validated
      PRK12678
      Location:8461113
      PRK12678; transcription termination factor Rho; Provisional
      cd02661
      Location:110410
      Peptidase_C19E; 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 ...
    4. XM_024446968.2XP_024302736.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/TrEMBL
      A4D2N6
      Conserved Domains (4) summary
      PHA03247
      Location:422938
      PHA03247; large tegument protein UL36; Provisional
      PRK07764
      Location:735940
      PRK07764; DNA polymerase III subunits gamma and tau; Validated
      PRK12678
      Location:8461113
      PRK12678; transcription termination factor Rho; Provisional
      cd02661
      Location:110410
      Peptidase_C19E; 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 ...
    5. XM_047420939.1XP_047276895.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/TrEMBL
      A4D2N6
    6. XM_011515573.2XP_011513875.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      See identical proteins and their annotated locations for XP_011513875.1

      UniProtKB/TrEMBL
      A4D2N6
      Conserved Domains (4) summary
      PHA03247
      Location:422938
      PHA03247; large tegument protein UL36; Provisional
      PRK07764
      Location:735940
      PRK07764; DNA polymerase III subunits gamma and tau; Validated
      PRK12678
      Location:8461113
      PRK12678; transcription termination factor Rho; Provisional
      cd02661
      Location:110410
      Peptidase_C19E; 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 ...
    7. XM_047420942.1XP_047276898.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/TrEMBL
      A4D2N6
    8. XM_047420935.1XP_047276891.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/TrEMBL
      A4D2N6
    9. XM_047420936.1XP_047276892.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/TrEMBL
      A4D2N6
    10. XM_047420937.1XP_047276893.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/TrEMBL
      A4D2N6
    11. XM_006715791.2XP_006715854.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      See identical proteins and their annotated locations for XP_006715854.1

      UniProtKB/TrEMBL
      A4D2N6
      Conserved Domains (4) summary
      PHA03247
      Location:422938
      PHA03247; large tegument protein UL36; Provisional
      PRK07764
      Location:735940
      PRK07764; DNA polymerase III subunits gamma and tau; Validated
      PRK12678
      Location:8461113
      PRK12678; transcription termination factor Rho; Provisional
      cd02661
      Location:110410
      Peptidase_C19E; 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 ...
    12. XM_005249883.6XP_005249940.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X4

      Conserved Domains (2) summary
      cd02661
      Location:110410
      Peptidase_C19E; 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 ...
      pfam00443
      Location:111409
      UCH; Ubiquitin carboxyl-terminal hydrolase
    13. XM_047420941.1XP_047276897.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/TrEMBL
      A4D2N6
    14. XM_047420943.1XP_047276899.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X2

      UniProtKB/TrEMBL
      C9JPC9
    15. XM_047420944.1XP_047276900.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X3

      UniProtKB/TrEMBL
      C9JPC9
      Related
      ENSP00000408217.2, ENST00000426246.2
    16. XM_047420945.1XP_047276901.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X3

      UniProtKB/TrEMBL
      C9JPC9

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060931.1 Alternate T2T-CHM13v2.0

      Range
      6197991..6280940
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054359207.1XP_054215182.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/TrEMBL
      A4D2N6
    2. XM_054359200.1XP_054215175.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/TrEMBL
      A4D2N6
    3. XM_054359204.1XP_054215179.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/TrEMBL
      A4D2N6
    4. XM_054359203.1XP_054215178.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/TrEMBL
      A4D2N6
    5. XM_054359206.1XP_054215181.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/TrEMBL
      A4D2N6
    6. XM_054359205.1XP_054215180.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/TrEMBL
      A4D2N6
    7. XM_054359202.1XP_054215177.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/TrEMBL
      A4D2N6
    8. XM_054359198.1XP_054215173.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/TrEMBL
      A4D2N6
    9. XM_054359199.1XP_054215174.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/TrEMBL
      A4D2N6
    10. XM_054359201.1XP_054215176.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/TrEMBL
      A4D2N6
    11. XM_054359212.1XP_054215187.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X4

    12. XM_054359208.1XP_054215183.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/TrEMBL
      A4D2N6
    13. XM_054359209.1XP_054215184.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X2

      UniProtKB/TrEMBL
      C9JPC9
    14. XM_054359210.1XP_054215185.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X3

      UniProtKB/TrEMBL
      C9JPC9
    15. XM_054359211.1XP_054215186.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X3

      UniProtKB/TrEMBL
      C9JPC9