Aliases for USP42 Gene

Aliases for USP42 Gene

  • Ubiquitin Specific Peptidase 42 2 3 5
  • Ubiquitin-Specific-Processing Protease 42 3 4
  • Ubiquitin Carboxyl-Terminal Hydrolase 42 3 4
  • Ubiquitin Specific Protease 42 2 3
  • Deubiquitinating Enzyme 42 3 4
  • Ubiquitin Thioesterase 42 3 4
  • Ubiquitin Thiolesterase 42 3
  • EC 4
  • EC 50
  • FLJ12697 2
  • USP42 5

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. Among its related pathways are Deubiquitination 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 Summary for USP42 Gene

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

Gene Wiki entry for USP42 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for USP42 Gene

Genomics for USP42 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for USP42 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around USP42 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for USP42

Top Transcription factor binding sites by QIAGEN in the USP42 gene promoter:
  • Egr-2
  • FOXF2
  • FOXO1
  • FOXO1a
  • Nkx3-1
  • Nkx3-1 v1
  • Nkx3-1 v2
  • Nkx3-1 v3
  • Nkx3-1 v4
  • Pax-5

Genomic Locations for USP42 Gene

Latest Assembly
82,822 bases
Plus strand

Previous Assembly
(GRCh37/hg19 by Entrez Gene)
56,616 bases
Plus strand

(GRCh37/hg19 by Ensembl)
56,681 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

Antibodies for research

  • Abcam antibodies for USP42
  • Santa Cruz Biotechnology (SCBT) Antibodies for USP42

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

  • Ubiquitin thiolesterase, family 2

Suggested Antigen Peptide Sequences for USP42 Gene

GenScript: Design optimal peptide antigens:
  • Ubiquitin carboxyl-terminal hydrolase (A4D2N6_HUMAN)
  • Ubiquitin carboxyl-terminal hydrolase (A4D2N7_HUMAN)
  • cDNA FLJ53014, highly similar to Ubiquitin carboxyl-terminal hydrolase 42 (EC (B4DP25_HUMAN)
  • Ubiquitin carboxyl-terminal hydrolase (E7EQB0_HUMAN)
  • Ubiquitin-specific-processing protease 42 (UBP42_HUMAN)

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 Function:
Deubiquitinating enzyme which may play an important role during spermatogenesis.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=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).; EC=; Evidence={ECO:0000269|PubMed:14715245};.

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:0004197 cysteine-type endopeptidase activity IBA 21873635
GO:0004843 thiol-dependent ubiquitin-specific protease activity IEA,IDA 14715245
GO:0005515 protein binding IPI 22085928
GO:0008233 peptidase activity IEA --
GO:0008234 cysteine-type peptidase 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:
  • Usp42 Usp42<tm2a(EUCOMM)Wtsi>

Animal Models for research

  • Taconic Biosciences Mouse Models for USP42

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products 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 4
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1

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:0005634 nucleus IBA 21873635
GO:0005654 nucleoplasm TAS --
GO:0005829 cytosol IBA 21873635
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

PathCards logo

SuperPathways for USP42 Gene

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

Pathways by source for USP42 Gene

1 Qiagen pathway for USP42 Gene
  • Ubiquitin-Proteasome Dependent Proteolysis

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:0018215 protein phosphopantetheinylation 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

mRNA/cDNA for USP42 Gene

18 NCBI additional mRNA sequence :
7 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products 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

Expression for USP42 Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

  • Testis (Reproductive System)

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, MaxQB, and MOPED for USP42 Gene

Protein tissue co-expression partners for USP42 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for USP42

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(4.3)
  • Nervous system(3.9)
genes like me logo Genes that share expression patterns with USP42: view

Primer products for research

No data available for 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 29 30
  • 99.19 (n)
(Canis familiaris)
Mammalia USP42 29 30
  • 81.45 (n)
(Bos Taurus)
Mammalia USP42 29 30
  • 78.95 (n)
(Mus musculus)
Mammalia Usp42 29 16 30
  • 74.96 (n)
(Rattus norvegicus)
Mammalia Usp42 29
  • 74.51 (n)
(Monodelphis domestica)
Mammalia USP42 30
  • 61 (a)
(Ornithorhynchus anatinus)
Mammalia USP42 30
  • 58 (a)
(Gallus gallus)
Aves USP42 29
  • 56.23 (n)
(Anolis carolinensis)
Reptilia USP42 30
  • 52 (a)
(Danio rerio)
Actinopterygii usp42 30
  • 39 (a)
wufi15g04 29
Fruit Fly
(Drosophila melanogaster)
Insecta scny 30
  • 21 (a)
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes UBP8 30
  • 23 (a)
Species where no ortholog for USP42 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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 Vase (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)
Evolutionary constrained regions (ECRs) for USP42: view image
Alliance of Genome Resources:
Additional Orthologs for USP42

Paralogs for USP42 Gene

(31) SIMAP similar genes for USP42 Gene using alignment to 8 proteins:

  • A4D2N6_HUMAN
  • A4D2N7_HUMAN
  • B4DP25_HUMAN
  • F8WD92_HUMAN
genes like me logo Genes that share paralogs with USP42: view

Variants for USP42 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for USP42 Gene

SNP ID Clinical significance and condition Chr 07 pos Variation AA Info Type
rs113589932 Benign: not provided 6,150,080(+) T/A
NM_032172.3(USP42):c.1884T>A (p.Ile628=)
rs6463529 -- p.Leu1030Pro

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for USP42 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

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
Leiden Open Variation Database (LOVD)

SNP Genotyping and Copy Number Assays for research

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

Disorders for USP42 Gene

Additional Disease Information for USP42

No disorders were found for USP42 Gene.

No data available for MalaCards , 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
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4
  3. 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
  4. 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
  5. Human and mouse proteases: a comparative genomic approach. (PMID: 12838346) Puente XS … López-Otín C (Nature reviews. Genetics 2003) 2 3

Products for USP42 Gene

Sources for USP42 Gene