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USP39 Gene

protein-coding   GIFtS: 59
GCID: GC02P085829

Ubiquitin Specific Peptidase 39

(Previous name: ubiquitin specific protease 39)
  See USP39-related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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This gene clusters with an RNA gene
Subcategory (RNA class): antisense

Quality score for the ORGUL clustered with this gene is 3

Aliases
Ubiquitin Specific Peptidase 391 2     SAD12 5
Ubiquitin Specific Protease 391 2     SnRNP Assembly Defective 1 Homolog (S.Cerevisiae)1
Small Nuclear Ribonucleoprotein 65kDa (U4/U6.U5)1 2     HSPC3322
Inactive Ubiquitin-Specific Peptidase 392 3     SNRNP652
65K2 3     SnRNP Assembly Defective 1 Homolog2
SAD1 Homolog2 3     U4/U6.U5 Tri-SnRNP-Associated Protein 22
U4/U6.U5 Tri-SnRNP-Associated 65 KDa Protein2 3     

External Ids:    HGNC: 200711   Entrez Gene: 107132   Ensembl: ENSG000001688837   OMIM: 6115945   UniProtKB: Q53GS93   
ORGUL members:         

Export aliases for USP39 gene to outside databases

Previous GC identifers: GC02P085787 GC02P085804 GC02P085817 GC02P085754


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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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. GO annotations related to this gene include ubiquitin thiolesterase activity.

UniProtKB/Swiss-Prot: SNUT2_HUMAN, Q53GS9
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 Wiki entry for USP39 Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000002.11  NT_022184.16  NC_018913.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the USP39 gene promoter:
         c-Fos   AP-1   JunB   Brachyury   Fra-1   FosB   Nkx2-5   E47   JunD   c-Jun   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidUSP39 promoter sequence
   Search Chromatin IP Primers for USP39

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat USP39


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 2p11.2   Ensembl cytogenetic band:  2p11.2   HGNC cytogenetic band: 2p11.2

USP39 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
USP39 gene location

GeneLoc information about chromosome 2         GeneLoc Exon Structure

GeneLoc location for GC02P085829:  view genomic region     (about GC identifiers)

Start:
85,829,979 bp from pter      End:
85,876,406 bp from pter
Size:
46,428 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: SNUT2_HUMAN, Q53GS9 (See protein sequence)
Recommended Name: U4/U6.U5 tri-snRNP-associated protein 2  
Size: 565 amino acids; 65381 Da
Subunit: 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
Sequence caution: Sequence=AAD27730.1; Type=Frameshift; Positions=Several; Sequence=AAG35521.1; Type=Erroneous
initiation; Note=Translation N-terminally extended;
Secondary accessions: A8K086 B3KM40 B4DHT4 D6W5L4 G5E9H0 Q6NX47 Q96RK9 Q9BV89 Q9H381 Q9P050
Q9Y310
Alternative splicing: 3 isoforms:  Q53GS9-1   Q53GS9-2   Q53GS9-3   

Explore the universe of human proteins at neXtProt for USP39: NX_Q53GS9

Explore proteomics data for USP39 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See USP39 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (5 alternative transcripts): 
    NP_001243654.1  NP_001243655.1  NP_001243656.1  NP_001243657.1  NP_006581.2  

    ENSEMBL proteins: 
     ENSP00000396854   ENSP00000392911   ENSP00000386572   ENSP00000386864   ENSP00000312981  
     ENSP00000400690   ENSP00000386803   ENSP00000396133  

    USP39 Human Recombinant Protein Products:

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    Novus Biologicals USP39 Protein
    Novus Biologicals USP39 Lysates
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for USP39

     
    Search eBioscience for Proteins for USP39 

    USP39 Antibody Products:

    Browse EMD Millipore's Extensive Line of Mono- and Polyclonal Antibodies
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    Abcam antibodies for USP39
    Cloud-Clone Corp. Antibodies for USP39
    Search ThermoFisher Antibodies for USP39
    LSBio Antibodies in human, mouse, rat for USP39

    USP39 Assay Products:

    Browse Kits and Assays available from EMD Millipore
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    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for USP39
    Cloud-Clone Corp. CLIAs for USP39
    Search eBioscience for ELISAs for USP39 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    USP: Ubiquitin-specific peptidases

    5 InterPro protein domains:
     IPR001394 Peptidase_C19_UCH
     IPR013083 Znf_RING/FYVE/PHD
     IPR028889 UCH/PAN2
     IPR015880 Znf_C2H2-like
     IPR001607 Znf_UBP

    Graphical View of Domain Structure for InterPro Entry Q53GS9

    ProtoNet protein and cluster: Q53GS9

    2 Blocks protein domains:
    IPB001394 Ubiquitin thiolesterase
    IPB001607 Zn-finger in ubiquitin thiolesterase


    UniProtKB/Swiss-Prot: SNUT2_HUMAN, Q53GS9
    Similarity: Belongs to the peptidase C19 family
    Similarity: Contains 1 UBP-type zinc finger
    Similarity: Contains 1 USP domain


    Find genes that share domains with USP39           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SNUT2_HUMAN, Q53GS9
    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): 2 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0004221ubiquitin thiolesterase activity ----
    GO:0008270zinc ion binding IEA--
         
    Find genes that share ontologies with USP39           About GenesLikeMe


    Phenotypes:
         4 GenomeRNAi human phenotypes for USP39:
     Decreased viability  Increased cell death in DLD-1   Increased gamma-H2AX phosphory  Synthetic lethal with Ras 

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for USP39
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       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for USP39
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for USP39

    miRNA
    Products:
        
    miRTarBase miRNAs that target USP39:
    hsa-mir-193b-3p (MIRT016575)

    Block miRNA regulation of human, mouse, rat USP39 using miScript Target Protectors
    Search for qRT-PCR Assays for microRNAs that regulate USP39
    SwitchGear 3'UTR luciferase reporter plasmidUSP39 3' UTR sequence
    Inhib. RNA
    Products:
        
    OriGene RNAi products in human, mouse, rat for USP39
    Predesigned siRNA for gene silencing in human, mouse, rat USP39

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for USP39

    Clone
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    OriGene clones in human, mouse for USP39 (see all 7)
    OriGene ORF clones in mouse, rat for USP39
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: USP39 (NM_006590)
    Sino Biological Human cDNA Clone for USP39
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for USP39
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat USP39
    Addgene plasmids for USP39 

    Cell Line
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    Browse ESI BIO Cell Lines and PureStem Progenitors for USP39 
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for USP39


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    SNUT2_HUMAN, Q53GS9: Nucleus
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    cytosol1

    Gene Ontology (GO): 1 cellular component term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005681spliceosomal complex IEA--

    Find genes that share ontologies with USP39           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    SuperPaths for USP39 About    
    See pathways by source

    SuperPathContained pathways About
    1Ubiquitin-Proteasome Dependent Proteolysis
    Ubiquitin-Proteasome Dependent Proteolysis
    2Spliceosome
    Spliceosome


    Find genes that share SuperPaths with USP39           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    1 Downloadable PowerPoint Slide of GeneGlobe Pathway Central Maps for USP39
        Ubiquitin-Proteasome Dependent Proteolysis



    1 Kegg Pathway  (Kegg details for USP39):
        Spliceosome

        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for USP39
    Interactions:

        Search GeneGlobe Interaction Network for USP39

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for USP39 (Q53GS92, 3 ENSP000003129814) via UniProtKB, MINT, STRING, and/or I2D (see all 836)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    PRPF6O949062, 3, ENSP000002660794MINT-7945693 MINT-7947479 I2D: score=2 STRING: ENSP00000266079
    PRPF8Q6P2Q92, 3, ENSP000003043504MINT-7945693 MINT-7947479 I2D: score=2 STRING: ENSP00000304350
    SART1O432902, 3, ENSP000003104484MINT-7945693 MINT-7947479 I2D: score=2 STRING: ENSP00000310448
    SNRNP200O756432, 3, ENSP000003171234MINT-7945693 MINT-7947479 I2D: score=2 STRING: ENSP00000317123
    SNRNP40Q96DI72, 3, ENSP000002636944MINT-7945693 MINT-7947479 I2D: score=2 STRING: ENSP00000263694
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000245spliceosomal complex assembly TAS10022888
    GO:0006397mRNA processing TAS10022888
    GO:0006511ubiquitin-dependent protein catabolic process IEA--
    GO:0007049cell cycle IEA--
    GO:0008380RNA splicing TAS10022888

    Find genes that share ontologies with USP39           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for USP39 (SNUT2)



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for USP39 gene (5 alternative transcripts): 
    NM_001256725.1  NM_001256726.1  NM_001256727.1  NM_001256728.1  NM_006590.3  

    Unigene Cluster for USP39:

    Ubiquitin specific peptidase 39
    Hs.654745  [show with all ESTs]
    Unigene Representative Sequence: NM_006590
    Selected Ensembl transcripts including schematic representations, and UCSC links where relevant (see all 19):
    ENST00000491659 ENST00000459775(uc002sqb.3) ENST00000474572 ENST00000448971
    ENST00000442708 ENST00000465282 ENST00000409025 ENST00000455732 ENST00000409470(uc002sqe.3)
    ENST00000323701(uc002sqg.3 uc010fgo.3) ENST00000458268 ENST00000409766
    ENST00000493829(uc010fgn.1) ENST00000467885 ENST00000490193 ENST00000481409
    ENST00000496047 ENST00000465514
    miRNA
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    Search for qRT-PCR Assays for microRNAs that regulate USP39
    SwitchGear 3'UTR luciferase reporter plasmidUSP39 3' UTR sequence
    Inhib. RNA
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    OriGene RNAi products in human, mouse, rat for USP39
    Predesigned siRNA for gene silencing in human, mouse, rat USP39
    Clone
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    OriGene ORF clones in mouse, rat for USP39
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: USP39 (NM_006590)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for USP39
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat USP39
    Addgene plasmids for USP39 
    Primer
    Products:
        
    OriGene qPCR primer pairs and template standards for USP39
    OriGene qSTAR qPCR primer pairs in human, mouse for USP39
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat USP39
      QuantiTect SYBR Green Assays in human, mouse, rat USP39
      QuantiFast Probe-based Assays in human, mouse, rat USP39

    Additional mRNA sequence: 

    AF130096.1 AF132955.1 AF161450.1 AF353989.1 AK001047.1 AK001772.1 AK056334.1 AK129872.1 
    AK222852.1 AK289451.1 AK295257.1 AK302236.1 AL117416.1 BC001384.2 BC067273.1 NR_046347.1 

    Selected DOTS entries (see all 25):

    DT.453481  DT.100028970  DT.120979877  DT.100819363  DT.100806489  DT.92445228  DT.120979903  DT.100819360 
    DT.100819365  DT.92327725  DT.92409375  DT.95355861  DT.120979861  DT.92445222  DT.100819353  DT.95356169 
    DT.100819351  DT.100819352  DT.120979821  DT.120979879  DT.120979909  DT.91907447  DT.120979806  DT.70101995 

    Selected AceView cDNA sequences (see all 330):

    BQ231467 AI521917 AW498512 BU171108 AW137601 BQ003938 BQ228567 AI126661 
    AI288801 AF161450 AI250751 BM702549 BX282560 BI915194 BM998272 BM550212 
    BG546716 AI689741 BM457330 CB137541 AU118856 BQ943636 AW872400 BM807225 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for USP39 (see all 10)    About this scheme

    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:                                                                                                                          -     -                           


    ECgene alternative splicing isoforms for USP39

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    USP39 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CATTGAGCTC
    USP39 Expression
    About this image


    USP39 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     
     Intermediate Mesoderm (Gastrulation Derivatives)
             Mesonephros
    USP39 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    USP39 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.654745
        Custom PCR Arrays for USP39
    Primer
    Products:
    OriGene qPCR primer pairs and template standards for USP39
    OriGene qSTAR qPCR primer pairs in human, mouse for USP39
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat USP39
    QuantiTect SYBR Green Assays in human, mouse, rat USP39
    QuantiFast Probe-based Assays in human, mouse, rat USP39
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for USP39

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of eukaryotes.

    Orthologs for USP39 gene from Selected species (see all 26)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Usp391 , 5 ubiquitin specific peptidase 391, 5 89.89(n)1
    97.52(a)1
      6 (32.27 cM)5
    280351  NM_138592.41  NP_613058.11 
     723186785 
    chicken
    (Gallus gallus)
    Aves USP391 ubiquitin specific peptidase 39 81.06(n)
    98.18(a)
      100859000  XM_003643466.2  XP_003643514.2 
    lizard
    (Anolis carolinensis)
    Reptilia USP396
    ubiquitin specific peptidase 39
    97(a)
    1 ↔ 1
    GL343608.1(100315-112352)
    African clawed frog
    (Xenopus laevis)
    Amphibia BX847852.12   -- 80.74(n)    BX847852.1 
    zebrafish
    (Danio rerio)
    Actinopterygii CF997221.12   -- 77.01(n)    CF997221.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG72881 CG7288 62.87(n)
    64.99(a)
      32881  NM_133106.3  NP_573334.1 
    worm
    (Caenorhabditis elegans)
    Secernentea F09D1.11 F09D1.1 57.79(n)
    58.72(a)
      173606  NM_061897.4  NP_494298.1 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes SAD1(YFR005C)4 Conserved zinc-finger domain protein involved in pre-mRNA more   --   6(155873-154527) 850555  NP_116660.1 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT4G223501 AT4G22350 56.33(n)
    51.53(a)
      828330  NM_118361.3  NP_193966.2 
    rice
    (Oryza sativa)
    Liliopsida Os.74112 Oryza sativa (japonica cultivar-group) cDNA cloneJ more 73.15(n)    AK070971.1 


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
    About This Section

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    Selected SNPs for USP39 (see all 835)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 2 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1880591541,2
    --85831828(+) ACCATC/TTTCCT 1 -- int10--------
    rs75840551,2
    C,F--85831834(+) TTCCTG/ACCCAA 1 -- int14Minor allele frequency- A:0.30NA WA CSA 124
    rs606619381,2
    C,F--85841520(+) TAATCG/CCAGCT 6 -- int1 us2k11Minor allele frequency- C:0.00WA 2
    rs1495685941,2
    --85841533(+) TCAGGA/GGTCTG 6 -- us2k1 int10--------
    rs101904281,2
    C--85841558(+) cttgaC/Acccag 6 -- int1 us2k12Minor allele frequency- A:0.33WA CSA 3
    rs1389394421,2
    --85841602(+) AATGCA/CCTCCA 6 -- us2k1 int10--------
    rs1164832451,2
    F--85841698(+) GTTCCT/CGAAAG 6 -- us2k1 int11Minor allele frequency- C:0.02WA 118
    rs133849011,2
    H--85841716(+) aggaaC/Ggcatc 6 -- int1 us2k14Minor allele frequency- G:0.00NS EA 418
    rs1852934801,2
    --85841766(+) GATCAC/TGGGGA 6 -- us2k1 int10--------
    rs1901074411,2
    --85841888(+) TTGGGA/TTATTA 6 -- us2k1 int10--------

    HapMap Linkage Disequilibrium report for USP39 (85829979 - 85876406 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for USP39:    About this table    
    Variant IDTypeSubtypePubMed ID
    dgv4202n71CNV Loss21882294
    nsv215431CNV Loss16902084

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing USP39
    DNA2.0 Custom Variant and Variant Library Synthesis for USP39

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 611594    OMIM disorders: --

    2 diseases for USP39:    
    About MalaCards
    agoraphobia    generalized anxiety disorder

    3 diseases from the University of Copenhagen DISEASES database for USP39:
    Panic disorder     Agoraphobia     Generalized anxiety disorder

    Find genes that share disorders with USP39           About GenesLikeMe

    Genetic Association Database (GAD): USP39
    Human Genome Epidemiology (HuGE) Navigator: USP39 (1 document)

    Export disorders for USP39 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for USP39 gene, integrated from 10 sources (see all 39):
    (articles sorted by number of sources associating them with USP39)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1, 4 Rose J.E....Uhl G.R. (Mol. Med. 2010)
    2. Usp39 is essential for mitotic spindle checkpoint integrity and controls mRNA-levels of aurora B. (PubMed id 18728397)1, 2 van Leuken R.J....Medema R.H. (Cell Cycle 2008)
    3. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (Cell 2006)
    4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    6. Human and mouse proteases: a comparative genomic approach. (PubMed id 12838346)1, 3 Puente X.S.... Lopez-Otin C. (Nat. Rev. Genet. 2003)
    7. The 65 and 110 kDa SR-related proteins of the U4/U6*U5 tri-snRNP are essential for the assembly of mature spliceosomes. (PubMed id 11350945)1, 2 Makarova O.V.... Luehrmann R. (EMBO J. 2001)
    8. Identification of novel human genes evolutionarily conserved in Caenorhabditis elegans by comparative proteomics. (PubMed id 10810093)1, 2 Lai C.-H.... Lin W.-C. (Genome Res. 2000)
    9. The protein interaction landscape of the human CMGC kinase group. (PubMed id 23602568)1 Varjosalo M....Gstaiger M. (Cell Rep 2013)
    10. Pathway Analysis of ChIP-Seq-Based NRF1 Target Genes Suggests a Logical Hypothesis of their Involvement in the Pathogenesis of Neurodegenerative Diseases. (PubMed id 24250222)1 Satoh J....Yamamoto Y. (Gene Regul Syst Bio 2013)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 10713 HGNC: 20071 AceView: USP39 Ensembl:ENSG00000168883 euGenes: HUgn10713
    ECgene: USP39 Kegg: 10713 H-InvDB: USP39

    (According to HUGE)
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    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for USP39 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section

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    Patent Information for USP39 gene:
    Search GeneIP for patents involving USP39

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
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