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Aliases for USP38 Gene

Aliases for USP38 Gene

  • Ubiquitin Specific Peptidase 38 2 3 5
  • Ubiquitin-Specific-Processing Protease 38 3 4
  • Ubiquitin Specific Protease 38 2 3
  • Deubiquitinating Enzyme 38 3 4
  • Ubiquitin Thioesterase 38 3 4
  • HP43.8KD 3 4
  • Ubiquitin Carboxyl-Terminal Hydrolase 38 3
  • Ubiquitin Thiolesterase 38 3
  • EC 3.4.19.12 4
  • KIAA1891 4

External Ids for USP38 Gene

Previous GeneCards Identifiers for USP38 Gene

  • GC04P144572
  • GC04P144683
  • GC04P144463
  • GC04P144325
  • GC04P144106
  • GC04P139835

Summaries for USP38 Gene

GeneCards Summary for USP38 Gene

USP38 (Ubiquitin Specific Peptidase 38) is a Protein Coding gene. Among its related pathways are Ubiquitin-Proteasome Dependent Proteolysis and Integrated Breast Cancer Pathway. GO annotations related to this gene include cysteine-type endopeptidase activity and thiol-dependent ubiquitinyl hydrolase activity. An important paralog of this gene is USP35.

UniProtKB/Swiss-Prot for USP38 Gene

  • Deubiquitinating enzyme exhibiting a preference towards Lys-63-linked Ubiquitin chains.

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for USP38 Gene

Genomics for USP38 Gene

Regulatory Elements for USP38 Gene

Enhancers for USP38 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
GH04G143472 0.7 dbSUPER 16.2 +290.8 290750 5.7 PKNOX1 FOXA2 HCFC1 MAX RAD21 YY1 FOXA1 JUND ATF3 ZNF143 USP38 LOC105377623 GAB1 LOC100420464 ENSG00000250540 RPSAP36
GH04G143389 1 Ensembl dbSUPER 10.6 +205.0 204984 0.2 SOX13 FOXA2 SAP130 GATA3 RERE FOS ZNF600 CREM TCF7L2 MIXL1 GAB1 USP38 LOC105377623 RPSAP36 RPS2P20
GH04G143351 1.8 FANTOM5 Ensembl ENCODE dbSUPER 4.8 +172.4 172440 11.6 FEZF1 GATA2 CBX5 FOS KLF13 CAVIN1 JUNB TBX21 ZNF592 MEF2D USP38 SMARCA5 GAB1 RPS2P20 RPSAP36
GH04G143478 0.8 dbSUPER 10.8 +296.3 296334 5.0 CTCF NFIB ZNF384 RAD21 CTBP1 ZNF366 ZSCAN5C SMC3 FOSL2 FOS GAB1 LOC105377623 USP38 LOC101927636 ENSG00000250540 RPSAP36
GH04G143183 1.1 ENCODE 7.2 +0.5 508 4.1 PKNOX1 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 FOS ZNF263 SP3 USP38 LOC105377623 ENSG00000250969
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around USP38 on UCSC Golden Path with GeneCards custom track

Promoters for USP38 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000174114 1283 4801 PKNOX1 FOXA2 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 FOS ZNF263

Genomic Location for USP38 Gene

Chromosome:
4
Start:
143,184,917 bp from pter
End:
143,223,874 bp from pter
Size:
38,958 bases
Orientation:
Plus strand

Genomic View for USP38 Gene

Genes around USP38 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
USP38 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for USP38 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for USP38 Gene

Proteins for USP38 Gene

  • Protein details for USP38 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8NB14-UBP38_HUMAN
    Recommended name:
    Ubiquitin carboxyl-terminal hydrolase 38
    Protein Accession:
    Q8NB14
    Secondary Accessions:
    • B3KX93
    • Q3ZCV1
    • Q8NDF5
    • Q96DK6
    • Q96PZ6
    • Q9BY55

    Protein attributes for USP38 Gene

    Size:
    1042 amino acids
    Molecular mass:
    116546 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAK26248.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAB71627.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAC03730.1; Type=Miscellaneous discrepancy; Note=The absence of the residues from Tyr-840 to Ser-871 is not the result of an alternative splicing.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for USP38 Gene

    Alternative splice isoforms for USP38 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for USP38 Gene

Post-translational modifications for USP38 Gene

  • Ubiquitination at Lys773
  • Modification sites at PhosphoSitePlus

Other Protein References for USP38 Gene

No data available for DME Specific Peptides for USP38 Gene

Domains & Families for USP38 Gene

Gene Families for USP38 Gene

Protein Domains for USP38 Gene

Suggested Antigen Peptide Sequences for USP38 Gene

Graphical View of Domain Structure for InterPro Entry

Q8NB14

UniProtKB/Swiss-Prot:

UBP38_HUMAN :
  • Belongs to the peptidase C19 family.
Family:
  • Belongs to the peptidase C19 family.
genes like me logo Genes that share domains with USP38: view

Function for USP38 Gene

Molecular function for USP38 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 exhibiting a preference towards Lys-63-linked Ubiquitin chains.

Enzyme Numbers (IUBMB) for USP38 Gene

Gene Ontology (GO) - Molecular Function for USP38 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004843 thiol-dependent ubiquitin-specific protease activity IDA 14715245
GO:0008233 peptidase activity IEA --
GO:0008234 cysteine-type peptidase activity IEA --
GO:0016787 hydrolase activity IEA --
GO:0036459 thiol-dependent ubiquitinyl hydrolase activity IEA --
genes like me logo Genes that share ontologies with USP38: view
genes like me logo Genes that share phenotypes with USP38: view

Animal Models for USP38 Gene

MGI Knock Outs for USP38:

Animal Model Products

  • Taconic Biosciences Mouse Models for USP38

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for USP38

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for USP38 Gene

Localization for USP38 Gene

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 USP38 gene
Compartment Confidence
nucleus 3
cytosol 3
golgi apparatus 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for USP38 Gene

Pathways & Interactions for USP38 Gene

genes like me logo Genes that share pathways with USP38: view

Pathways by source for USP38 Gene

1 BioSystems pathway for USP38 Gene
1 Qiagen pathway for USP38 Gene

Gene Ontology (GO) - Biological Process for USP38 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006508 proteolysis IEA --
GO:0006511 ubiquitin-dependent protein catabolic process IEA --
GO:0016579 protein deubiquitination IDA 14715245
genes like me logo Genes that share ontologies with USP38: view

No data available for SIGNOR curated interactions for USP38 Gene

Drugs & Compounds for USP38 Gene

(1) Drugs for USP38 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 USP38: view

Transcripts for USP38 Gene

Unigene Clusters for USP38 Gene

Ubiquitin specific peptidase 38:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for USP38

Alternative Splicing Database (ASD) splice patterns (SP) for USP38 Gene

No ASD Table

Relevant External Links for USP38 Gene

GeneLoc Exon Structure for
USP38
ECgene alternative splicing isoforms for
USP38

Expression for USP38 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for USP38 Gene

mRNA differential expression in normal tissues according to GTEx for USP38 Gene

This gene is overexpressed in Muscle - Skeletal (x6.8).

Protein differential expression in normal tissues from HIPED for USP38 Gene

This gene is overexpressed in Tlymphocyte (67.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for USP38 Gene



Protein tissue co-expression partners for USP38 Gene

NURSA nuclear receptor signaling pathways regulating expression of USP38 Gene:

USP38

SOURCE GeneReport for Unigene cluster for USP38 Gene:

Hs.480848

mRNA Expression by UniProt/SwissProt for USP38 Gene:

Q8NB14-UBP38_HUMAN
Tissue specificity: Highly expressed in skeletal muscle. Expressed in adrenal gland.

Evidence on tissue expression from TISSUES for USP38 Gene

  • Nervous system(4.4)
  • Adrenal gland(4.1)
  • Stomach(4.1)
genes like me logo Genes that share expression patterns with USP38: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and Phenotype-based relationships between genes and organs from Gene ORGANizer for USP38 Gene

Orthologs for USP38 Gene

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

Orthologs for USP38 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia USP38 34 35
  • 99.46 (n)
cow
(Bos Taurus)
Mammalia USP38 34 35
  • 91.09 (n)
dog
(Canis familiaris)
Mammalia USP38 34 35
  • 90.1 (n)
mouse
(Mus musculus)
Mammalia Usp38 34 16 35
  • 87.46 (n)
rat
(Rattus norvegicus)
Mammalia Usp38 34
  • 87.16 (n)
oppossum
(Monodelphis domestica)
Mammalia USP38 35
  • 86 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia USP38 35
  • 81 (a)
OneToOne
chicken
(Gallus gallus)
Aves USP38 34 35
  • 73.82 (n)
lizard
(Anolis carolinensis)
Reptilia USP38 35
  • 71 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia usp38 34
  • 70.6 (n)
Str.10104 34
zebrafish
(Danio rerio)
Actinopterygii USP38 35
  • 64 (a)
OneToOne
usp38 34
  • 63.82 (n)
Dr.15383 34
fruit fly
(Drosophila melanogaster)
Insecta CG8830 35
  • 29 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes UBP13 35
  • 18 (a)
ManyToMany
UBP9 35
  • 17 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 41 (a)
OneToMany
Species where no ortholog for USP38 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 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)
  • worm (Caenorhabditis elegans)

Evolution for USP38 Gene

ENSEMBL:
Gene Tree for USP38 (if available)
TreeFam:
Gene Tree for USP38 (if available)

Paralogs for USP38 Gene

Paralogs for USP38 Gene

(3) SIMAP similar genes for USP38 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with USP38: view

Variants for USP38 Gene

Sequence variations from dbSNP and Humsavar for USP38 Gene

SNP ID Clin Chr 04 pos Sequence Context AA Info Type
rs1000018269 -- 143,188,033(+) TGAGT(A/G)ATGAA intron-variant
rs1000069370 -- 143,210,587(+) GTCTC(-/AA)AAAAA intron-variant
rs10000911 -- 143,215,040(+) TTTAT(G/T)AAATT intron-variant, utr-variant-3-prime
rs10001113 -- 143,215,252(+) CTTCC(C/T)CTCAG intron-variant, utr-variant-3-prime
rs1000148899 -- 143,184,691(+) ACACT(C/G)TCCAG nc-transcript-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for USP38 Gene

Variant ID Type Subtype PubMed ID
esv3350576 CNV insertion 20981092
nsv1033902 CNV gain 25217958

Variation tolerance for USP38 Gene

Residual Variation Intolerance Score: 2.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.80; 47.51% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for USP38 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
USP38

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for USP38 Gene

Disorders for USP38 Gene

Relevant External Links for USP38

Genetic Association Database (GAD)
USP38
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
USP38

No disorders were found for USP38 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for USP38 Gene

Publications for USP38 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  2. Cloning and enzymatic analysis of 22 novel human ubiquitin-specific proteases. (PMID: 14715245) Quesada V. … Lopez-Otin C. (Biochem. Biophys. Res. Commun. 2004) 3 4 64
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  4. Human and mouse proteases: a comparative genomic approach. (PMID: 12838346) Puente X.S. … Lopez-Otin C. (Nat. Rev. Genet. 2003) 2 3 64
  5. Prediction of the coding sequences of unidentified human genes. XXI. The complete sequences of 60 new cDNA clones from brain which code for large proteins. (PMID: 11572484) Nagase T. … Ohara O. (DNA Res. 2001) 3 4 64

Products for USP38 Gene

  • Addgene plasmids for USP38

Sources for USP38 Gene

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