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Aliases for USP39 Gene

Aliases for USP39 Gene

  • Ubiquitin Specific Peptidase 39 2 3
  • Small Nuclear Ribonucleoprotein 65kDa (U4/U6.U5) 2 3
  • U4/U6.U5 Tri-SnRNP-Associated 65 KDa Protein 3 4
  • Inactive Ubiquitin-Specific Peptidase 39 3 4
  • Ubiquitin Specific Protease 39 2 3
  • SAD1 Homolog 3 4
  • SAD1 3 6
  • 65K 3 4
  • SnRNP Assembly Defective 1 Homolog (S.Cerevisiae) 2
  • U4/U6.U5 Tri-SnRNP-Associated Protein 2 3
  • SnRNP Assembly Defective 1 Homolog 3
  • SNRNP65 3
  • HSPC332 3
  • CGI-21 3

External Ids for USP39 Gene

Previous GeneCards Identifiers for USP39 Gene

  • GC02P085787
  • GC02P085804
  • GC02P085817
  • GC02P085754
  • GC02P085829

Summaries for USP39 Gene

GeneCards Summary for USP39 Gene

USP39 (Ubiquitin Specific Peptidase 39) is a Protein Coding gene. Diseases associated with USP39 include agoraphobia and generalized anxiety disorder. Among its related pathways are Ubiquitin-Proteasome Dependent Proteolysis and Spliceosome. GO annotations related to this gene include ubiquitin thiolesterase activity.

UniProtKB/Swiss-Prot for USP39 Gene

  • Plays a role in pre-mRNA splicing as a component of the U4/U6-U5 tri-snRNP, one of the building blocks of the spliceosome. Regulates AURKB mRNA levels, and thereby plays a role in cytokinesis and in the spindle checkpoint. Does not have ubiquitin-specific peptidase activity, but could be a competitor of ubiquitin C-terminal hydrolases (UCHs).

Gene Wiki entry for USP39 Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for USP39 Gene

Genomics for USP39 Gene

Regulatory Elements for USP39 Gene

Genomic Location for USP39 Gene

Start:
85,602,842 bp from pter
End:
85,649,284 bp from pter
Size:
46,443 bases
Orientation:
Plus strand

Genomic View for USP39 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for USP39 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for USP39 Gene

Proteins for USP39 Gene

  • Protein details for USP39 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q53GS9-SNUT2_HUMAN
    Recommended name:
    U4/U6.U5 tri-snRNP-associated protein 2
    Protein Accession:
    Q53GS9
    Secondary Accessions:
    • A8K086
    • B3KM40
    • B4DHT4
    • D6W5L4
    • G5E9H0
    • Q6NX47
    • Q96RK9
    • Q9BV89
    • Q9H381
    • Q9P050
    • Q9Y310

    Protein attributes for USP39 Gene

    Size:
    565 amino acids
    Molecular mass:
    65381 Da
    Quaternary structure:
    • Component of the U4/U6-U5 tri-snRNP complex composed of the U4, U6 and U5 snRNAs and at least PRPF3, PRPF4, PRPF6, PRPF8, PRPF31, SNRNP200, TXNL4A, WDR57, SNRNP40, DDX23, CD2BP2, PPIH, NHP2L1, EFTUD2, SART1 and USP39.
    SequenceCaution:
    • Sequence=AAD27730.1; Type=Frameshift; Positions=Several; Evidence={ECO:0000305}; Sequence=AAG35521.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Alternative splice isoforms for USP39 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for USP39 Gene

Proteomics data for USP39 Gene at MOPED

Post-translational modifications for USP39 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for USP39 Gene

Domains for USP39 Gene

Gene Families for USP39 Gene

HGNC:
  • USP :Ubiquitin-specific peptidases

Graphical View of Domain Structure for InterPro Entry

Q53GS9

UniProtKB/Swiss-Prot:

SNUT2_HUMAN :
  • Q53GS9
Domain:
  • Contains 1 USP domain.
Family:
  • Belongs to the peptidase C19 family.
Similarity:
  • Contains 1 UBP-type zinc finger.
genes like me logo Genes that share domains with USP39: view

Function for USP39 Gene

Molecular function for USP39 Gene

UniProtKB/Swiss-Prot Function: Plays a role in pre-mRNA splicing as a component of the U4/U6-U5 tri-snRNP, one of the building blocks of the spliceosome. Regulates AURKB mRNA levels, and thereby plays a role in cytokinesis and in the spindle checkpoint. Does not have ubiquitin-specific peptidase activity, but could be a competitor of ubiquitin C-terminal hydrolases (UCHs).

Gene Ontology (GO) - Molecular Function for USP39 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008270 zinc ion binding IEA --
GO:0036459 ubiquitinyl hydrolase activity IEA --
genes like me logo Genes that share ontologies with USP39: view
genes like me logo Genes that share phenotypes with USP39: view

miRNA for USP39 Gene

miRTarBase miRNAs that target USP39

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for USP39 Gene

Localization for USP39 Gene

Subcellular locations from UniProtKB/Swiss-Prot for USP39 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for USP39 Gene COMPARTMENTS Subcellular localization image for USP39 gene
Compartment Confidence
nucleus 5
cytosol 1

Gene Ontology (GO) - Cellular Components for USP39 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005681 spliceosomal complex IEA --
genes like me logo Genes that share ontologies with USP39: view

Pathways for USP39 Gene

genes like me logo Genes that share pathways with USP39: view

Pathways by source for USP39 Gene

1 Qiagen pathway for USP39 Gene
1 KEGG pathway for USP39 Gene

Gene Ontology (GO) - Biological Process for USP39 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000245 spliceosomal complex assembly TAS 10022888
GO:0006397 mRNA processing TAS 10022888
GO:0006511 ubiquitin-dependent protein catabolic process IEA --
GO:0007049 cell cycle IEA --
GO:0008380 RNA splicing TAS 10022888
genes like me logo Genes that share ontologies with USP39: view

Transcripts for USP39 Gene

Unigene Clusters for USP39 Gene

Ubiquitin specific peptidase 39:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for USP39 Gene

ExUns: 1a · 1b · 1c · 1d · 1e · 1f ^ 2 ^ 3 ^ 4a · 4b ^ 5a · 5b · 5c · 5d ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15a · 15b · 15c
SP1: - -
SP2: - -
SP3: - - -
SP4: -
SP5: - -
SP6: - -
SP7: -
SP8:
SP9: - -
SP10:

Relevant External Links for USP39 Gene

GeneLoc Exon Structure for
USP39
ECgene alternative splicing isoforms for
USP39

Expression for USP39 Gene

mRNA expression in normal human tissues for USP39 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for USP39 Gene

SOURCE GeneReport for Unigene cluster for USP39 Gene Hs.654745

genes like me logo Genes that share expressions with USP39: view

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for USP39 Gene

Orthologs for USP39 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for USP39 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia USP39 35
  • 99.71 (n)
  • 99.82 (a)
USP39 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia USP39 35
  • 92.74 (n)
  • 97.88 (a)
USP39 36
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia USP39 35
  • 92.39 (n)
  • 98.75 (a)
USP39 36
  • 99 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Usp39 35
  • 89.89 (n)
  • 97.52 (a)
Usp39 16
Usp39 36
  • 98 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia USP39 36
  • 92 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia USP39 36
  • 97 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Usp39 35
  • 89.98 (n)
  • 97.09 (a)
chicken
(Gallus gallus)
Aves USP39 35
  • 81.06 (n)
  • 98.18 (a)
USP39 36
  • 90 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia USP39 36
  • 97 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.8201 35
usp39 35
  • 78.41 (n)
  • 91.09 (a)
zebrafish
(Danio rerio)
Actinopterygii usp39 35
  • 76.11 (n)
  • 88.5 (a)
usp39 36
  • 87 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP008381 35
  • 62.66 (n)
  • 63.33 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG7288 35
  • 62.87 (n)
  • 64.99 (a)
CG7288 36
  • 62 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea F09D1.1 35
  • 57.79 (n)
  • 58.72 (a)
usp-39 36
  • 52 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SAD1 36
  • 32 (a)
OneToOne
SAD1 38
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.3049 35
soybean
(Glycine max)
eudicotyledons Gma.6985 35
thale cress
(Arabidopsis thaliana)
eudicotyledons AT4G22350 35
  • 56.33 (n)
  • 51.53 (a)
rice
(Oryza sativa)
Liliopsida Os.7411 35
Os09g0407900 35
  • 57.91 (n)
  • 53.6 (a)
wheat
(Triticum aestivum)
Liliopsida Ta.9604 35
bread mold
(Neurospora crassa)
Ascomycetes NCU09547 35
  • 54.86 (n)
  • 49.24 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes ubp10 35
  • 52.98 (n)
  • 50.35 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.1834 36
  • 61 (a)
OneToOne
Species with no ortholog for USP39:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • 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 blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for USP39 Gene

ENSEMBL:
Gene Tree for USP39 (if available)
TreeFam:
Gene Tree for USP39 (if available)

Paralogs for USP39 Gene

No data available for Paralogs for USP39 Gene

Variants for USP39 Gene

Sequence variations from dbSNP and Humsavar for USP39 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type MAF
rs9805 -- 85,649,077(-) TGGAG(A/G)AGGGT utr-variant-3-prime, nc-transcript-variant
rs1000358 -- 85,620,926(-) ATACC(C/T)ATAAA intron-variant
rs1000359 -- 85,620,579(-) taaaa(C/T)ttaaa intron-variant
rs1044660 -- 85,641,058(+) CAAGA(G/T)ATTCA reference, missense, nc-transcript-variant
rs2118176 -- 85,628,177(-) CAGAG(C/T)GAGAC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for USP39 Gene

Variant ID Type Subtype PubMed ID
dgv4202n71 CNV Loss 21882294
nsv215431 CNV Loss 16902084

Relevant External Links for USP39 Gene

HapMap Linkage Disequilibrium report
USP39

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for USP39 Gene

Disorders for USP39 Gene

MalaCards: The human disease database

MalaCards: The human disease database. (2) Diseases for USP39 Gene including...

Search for USP39 Gene in MalaCards »

(3) University of Copenhagen DISEASES for USP39 Gene

Relevant External Links for USP39

Genetic Association Database (GAD)
USP39
Human Genome Epidemiology (HuGE) Navigator
USP39
genes like me logo Genes that share disorders with USP39: view

No data available for UniProtKB/Swiss-Prot for USP39 Gene

Publications for USP39 Gene

  1. Identification of novel human genes evolutionarily conserved in Caenorhabditis elegans by comparative proteomics. (PMID: 10810093) Lai C.-H. … Lin W.-C. (Genome Res. 2000) 3 4
  2. The 65 and 110 kDa SR-related proteins of the U4/U6*U5 tri-snRNP are essential for the assembly of mature spliceosomes. (PMID: 11350945) Makarova O.V. … Luehrmann R. (EMBO J. 2001) 3 4
  3. Human and mouse proteases: a comparative genomic approach. (PMID: 12838346) Puente X.S. … Lopez-Otin C. (Nat. Rev. Genet. 2003) 2 3
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  5. 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

Products for USP39 Gene

Sources for USP39 Gene

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