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Aliases for USP42 Gene

Aliases for USP42 Gene

  • Ubiquitin Specific Peptidase 42 2 3 5
  • Ubiquitin-Specific-Processing Protease 42 4
  • Ubiquitin Specific Protease 42 2
  • Deubiquitinating Enzyme 42 4
  • Ubiquitin Thioesterase 42 4
  • EC 4
  • EC 56

External Ids for USP42 Gene

Previous GeneCards Identifiers for USP42 Gene

  • GC07P005854
  • GC07P005895
  • GC07P005893
  • GC07P006111
  • GC07P006144
  • GC07P006022
  • GC07P006088

Summaries for USP42 Gene

GeneCards Summary for USP42 Gene

USP42 (Ubiquitin Specific Peptidase 42) is a Protein Coding gene. Diseases associated with USP42 include Leukemia, Acute Myeloid. Among its related pathways are Metabolism of proteins and Ubiquitin-Proteasome Dependent Proteolysis. Gene Ontology (GO) annotations related to this gene include cysteine-type endopeptidase activity and thiol-dependent ubiquitinyl hydrolase activity. An important paralog of this gene is USP36.

UniProtKB/Swiss-Prot for USP42 Gene

  • Deubiquitinating enzyme which may play an important role during spermatogenesis.

Gene Wiki entry for USP42 Gene

Additional gene information for USP42 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for USP42 Gene

Genomics for USP42 Gene

GeneHancer (GH) Regulatory Elements for USP42 Gene

Promoters and enhancers for USP42 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH07I006103 Promoter/Enhancer 2.3 EPDnew FANTOM5 Ensembl ENCODE 560.8 +26.7 26692 3.8 HDGF PKNOX1 CLOCK FOXA2 SMAD1 ARNT ZFP64 ARID4B SIN3A FEZF1 USP42 GC07M006104 EIF2AK1 ZNF12 C7orf26 ZNF316 RNU6-218P TNRC18 PMS2 CCZ1
GH07I006076 Enhancer 1.1 Ensembl ENCODE 550.8 -1.2 -1154 1.6 FOXA2 MLX ARID4B SIN3A DMAP1 ZNF48 ETS1 GTF3C2 SLC30A9 FOS USP42 PMS2 CCZ1 EIF2AK1
GH07I006078 Enhancer 0.5 ENCODE 550.8 0.0 -6 0.6 SCRT2 CREB1 PRDM10 PRDM4 ATF2 USP42 EIF2AK1
GH07I005523 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 38.7 -549.2 -549245 11.1 MLX FEZF1 DMAP1 YY1 E2F8 ZNF143 NFYC GLIS1 RCOR2 NBN ACTB GC07M005528 GC07M005529 GC07M005530 PIR61399 ANKRD61 USP42 AP5Z1 CCZ1 TNRC18
GH07I005416 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 28.9 -654.8 -654762 15.1 CLOCK MLX FEZF1 DMAP1 YY1 SLC30A9 ZNF213 E2F8 ZNF143 ZNF263 TNRC18 GC07P005425 ENSG00000272953 USP42 ANKRD61 RNF216P1 RBAK AP5Z1 RNF216 FBXL18
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around USP42 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the USP42 gene promoter:

Genomic Locations for USP42 Gene

Genomic Locations for USP42 Gene
82,822 bases
Plus strand

Genomic View for USP42 Gene

Genes around USP42 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
USP42 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for USP42 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for USP42 Gene

Proteins for USP42 Gene

  • Protein details for USP42 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Ubiquitin carboxyl-terminal hydrolase 42
    Protein Accession:
    Secondary Accessions:
    • A2RUE3
    • B5MDA5
    • Q0VIN8
    • Q3C166
    • Q6P9B4

    Protein attributes for USP42 Gene

    1324 amino acids
    Molecular mass:
    145392 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for USP42 Gene


neXtProt entry for USP42 Gene

Selected DME Specific Peptides for USP42 Gene


Post-translational modifications for USP42 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Domains & Families for USP42 Gene

Gene Families for USP42 Gene

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

Protein Domains for USP42 Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the peptidase C19 family.
  • Belongs to the peptidase C19 family.
genes like me logo Genes that share domains with USP42: view

Function for USP42 Gene

Molecular function for USP42 Gene

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 which may play an important role during spermatogenesis.

Enzyme Numbers (IUBMB) for USP42 Gene

Phenotypes From GWAS Catalog for USP42 Gene

Gene Ontology (GO) - Molecular Function for USP42 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004843 thiol-dependent ubiquitin-specific protease activity IDA 14715245
GO:0005515 protein binding IPI 22085928
GO:0008233 peptidase activity IEA --
GO:0008234 cysteine-type peptidase activity IEA --
GO:0016787 hydrolase activity IEA --
genes like me logo Genes that share ontologies with USP42: view
genes like me logo Genes that share phenotypes with USP42: view

Animal Models for USP42 Gene

MGI Knock Outs for USP42:

Animal Model Products

  • Taconic Biosciences Mouse Models for USP42

Clone Products

  • Addgene plasmids for USP42

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for USP42 Gene

Localization for USP42 Gene

Subcellular locations from

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 USP42 gene
Compartment Confidence
nucleus 5
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for USP42 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm TAS --
genes like me logo Genes that share ontologies with USP42: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for USP42 Gene

Pathways & Interactions for USP42 Gene

genes like me logo Genes that share pathways with USP42: view

Pathways by source for USP42 Gene

Gene Ontology (GO) - Biological Process for USP42 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006508 proteolysis IEA --
GO:0006511 ubiquitin-dependent protein catabolic process IEA --
GO:0007283 spermatogenesis IEA --
GO:0016579 protein deubiquitination IEA,TAS --
GO:0030154 cell differentiation IEA --
genes like me logo Genes that share ontologies with USP42: view

No data available for SIGNOR curated interactions for USP42 Gene

Drugs & Compounds for USP42 Gene

(1) Drugs for USP42 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 USP42: view

Transcripts for USP42 Gene

Unigene Clusters for USP42 Gene

Ubiquitin specific peptidase 42:
Representative Sequences:

Clone Products

  • Addgene plasmids for USP42

Alternative Splicing Database (ASD) splice patterns (SP) for USP42 Gene

No ASD Table

Relevant External Links for USP42 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for USP42 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for USP42 Gene

Protein differential expression in normal tissues from HIPED for USP42 Gene

This gene is overexpressed in Bone marrow mesenchymal stem cell (65.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for USP42 Gene

Protein tissue co-expression partners for USP42 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of USP42 Gene:


SOURCE GeneReport for Unigene cluster for USP42 Gene:


mRNA Expression by UniProt/SwissProt for USP42 Gene:

Tissue specificity: Broadly expressed.

Evidence on tissue expression from TISSUES for USP42 Gene

  • Liver(4.2)
  • Nervous system(3.7)
genes like me logo Genes that share expression patterns with USP42: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for USP42 Gene

Orthologs for USP42 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for USP42 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia USP42 33 34
  • 99.19 (n)
(Canis familiaris)
Mammalia USP42 33 34
  • 81.45 (n)
(Bos Taurus)
Mammalia USP42 33 34
  • 78.95 (n)
(Mus musculus)
Mammalia Usp42 33 16 34
  • 74.96 (n)
(Rattus norvegicus)
Mammalia Usp42 33
  • 74.51 (n)
(Monodelphis domestica)
Mammalia USP42 34
  • 61 (a)
(Ornithorhynchus anatinus)
Mammalia USP42 34
  • 58 (a)
(Gallus gallus)
Aves USP42 33
  • 56.23 (n)
(Anolis carolinensis)
Reptilia USP42 34
  • 52 (a)
(Danio rerio)
Actinopterygii usp42 34
  • 39 (a)
wufi15g04 33
fruit fly
(Drosophila melanogaster)
Insecta scny 34
  • 21 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes UBP8 34
  • 23 (a)
Species where no ortholog for USP42 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • 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)
  • 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 squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for USP42 Gene

Gene Tree for USP42 (if available)
Gene Tree for USP42 (if available)

Paralogs for USP42 Gene

genes like me logo Genes that share paralogs with USP42: view

Variants for USP42 Gene

Sequence variations from dbSNP and Humsavar for USP42 Gene

SNP ID Clin Chr 07 pos Variation AA Info Type
rs1000050211 -- 6,105,024(+) C/T 5_prime_UTR_variant, genic_upstream_transcript_variant, intron_variant
rs1000050769 -- 6,134,194(+) A/G intron_variant
rs1000054556 -- 6,129,350(+) G/A/C/T intron_variant
rs1000066276 -- 6,147,797(+) T/C coding_sequence_variant, missense_variant
rs1000076411 -- 6,147,543(+) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for USP42 Gene

Variant ID Type Subtype PubMed ID
dgv1183e199 CNV deletion 23128226
dgv3484n106 CNV deletion 24896259
dgv403n21 CNV loss 19592680
esv1914954 OTHER inversion 16254605
esv22984 CNV loss 19812545
esv2672123 CNV deletion 23128226
esv3612018 CNV loss 21293372
nsv1034916 CNV gain 25217958
nsv436904 CNV insertion 17901297
nsv510065 OTHER sequence alteration 20534489
nsv522155 CNV loss 19592680
nsv5628 CNV deletion 18451855
nsv7392 OTHER inversion 18451855
nsv818475 CNV loss 17921354
nsv950802 CNV deletion 24416366

Variation tolerance for USP42 Gene

Residual Variation Intolerance Score: 61.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 11.06; 92.17% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for USP42 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for USP42 Gene

Disorders for USP42 Gene

MalaCards: The human disease database

(1) MalaCards diseases for USP42 Gene - From: DISEASES

Disorder Aliases PubMed IDs
leukemia, acute myeloid
  • aml
- elite association - COSMIC cancer census association via MalaCards
Search USP42 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for USP42

genes like me logo Genes that share disorders with USP42: view

No data available for UniProtKB/Swiss-Prot and Genatlas for USP42 Gene

Publications for USP42 Gene

  1. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen JV … Mann M (Cell 2006) 3 4 58
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  3. Cloning and enzymatic analysis of 22 novel human ubiquitin-specific proteases. (PMID: 14715245) Quesada V … López-Otín C (Biochemical and biophysical research communications 2004) 3 4 58
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  5. Human and mouse proteases: a comparative genomic approach. (PMID: 12838346) Puente XS … López-Otín C (Nature reviews. Genetics 2003) 2 3 58

Products for USP42 Gene

  • Addgene plasmids for USP42

Sources for USP42 Gene

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