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YOD1 Gene

protein-coding   GIFtS: 52
GCID: GC01M207217

YOD1 Deubiquitinase

(Previous names: YOD1 OTU deubiquinating enzyme 1 homolog ( yeast), YOD1...)
  See 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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Aliases
YOD1 Deubiquitinase1 2     PRO09072
DUBA82 3 5     hsHIN72
OTUD22 3 5     OTU Domain Containing 22
YOD1 OTU Deubiquinating Enzyme 1 Homolog ( Yeast)1 2     Ubiquitin Thioesterase OTU12
DUBA-82 3     EC 3.4.19.123
HIN-72 3     HIN73
HIV-1-Induced Protease 72 3     HsHIN73
OTU Domain-Containing Protein 22 3     EC 3.1.28
YOD1 OTU Deubiquinating Enzyme 1 Homolog (S. Cerevisiae)1     

External Ids:    HGNC: 250351   Entrez Gene: 554322   Ensembl: ENSG000001806677   OMIM: 6120235   UniProtKB: Q5VVQ63   

Export aliases for YOD1 gene to outside databases

Previous GC identifers: GC01M203608 GC01M205284 GC01M177914


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for YOD1 Gene:
Protein ubiquitination controls many intracellular processes, including cell cycle progression, transcriptional
activation, and signal transduction. This dynamic process, involving ubiquitin conjugating enzymes and
deubiquitinating enzymes, adds and removes ubiquitin. Deubiquitinating enzymes are cysteine proteases that
specifically cleave ubiquitin from ubiquitin-conjugated protein substrates. The protein encoded by this gene
belongs to a DUB subfamily characterized by an ovarian tumor (OTU) domain. Alternative splicing results in
multiple transcript variants. (provided by RefSeq, Jan 2013)

GeneCards Summary for YOD1 Gene:
YOD1 (YOD1 deubiquitinase) is a protein-coding gene. Diseases associated with YOD1 include hiv-1, and malaria. GO annotations related to this gene include ubiquitin-specific protease activity.

UniProtKB/Swiss-Prot: OTU1_HUMAN, Q5VVQ6
Function: Hydrolase that can remove conjugated ubiquitin from proteins and participates in endoplasmic
reticulum-associated degradation (ERAD) for misfolded lumenal proteins. May act by triming the ubiquitin chain on
the associated substrate to facilitate their threading through the VCP/p97 pore. Ubiquitin moieties on substrates
may present a steric impediment to the threading process when the substrate is transferred to the VCP pore and
threaded through VCP's axial channel. Mediates deubiquitination of 'Lys-27'-, 'Lys-29'- and 'Lys-33'-linked
polyubiquitin chains. Also able to hydrolyze 'Lys-11'-linked ubiquitin chains. Cleaves both polyubiquitin and
di-ubiquitin




(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:
NC_000001.11  NT_004487.20  NC_018912.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the YOD1 gene promoter:
         E2F-4   E2F-3a   E2F-5   HTF   E2F-2   GATA-2   GATA-1   E2F-1   E2F   HSF2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidYOD1 promoter sequence
   Search Chromatin IP Primers for YOD1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat YOD1


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

Entrez Gene cytogenetic band: 1q32.2   Ensembl cytogenetic band:  1q32.2   HGNC cytogenetic band: 1q32.2

YOD1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
YOD1 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M207217:  view genomic region     (about GC identifiers)

Start:
207,217,194 bp from pter      End:
207,226,325 bp from pter
Size:
9,132 bases      Orientation:
minus 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, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: OTU1_HUMAN, Q5VVQ6 (See protein sequence)
Recommended Name: Ubiquitin thioesterase OTU1  
Size: 348 amino acids; 38322 Da
Subunit: Interacts with VCP; the interaction is direct. Interacts with FAF2/UBXD8. Interacts with DERL1; however
interaction is dependent on the UBAX-like region, suggesting that it may be indirect
Sequence caution: Sequence=AAF71033.1; Type=Erroneous translation; Note=Wrong choice of frame;
Sequence=EAW93510.1; Type=Erroneous gene model prediction;
3 PDB 3D structures from and Proteopedia for YOD1:
4BOQ (3D)        4BOS (3D)        4BOZ (3D)    
Secondary accessions: B2RNX3 Q5VVQ5 Q6ZRS6 Q86T63 Q9P1L8
Alternative splicing: 2 isoforms:  Q5VVQ6-1   Q5VVQ6-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for YOD1: NX_Q5VVQ6

Explore proteomics data for YOD1 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus
  • Selected DME Specific Peptides for YOD1 (Q5VVQ6) (see all 7)
     LRCMVCQ  CQKGLTGQ  DGIHYDPL  YYVVEGGV 


    See YOD1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (2 alternative transcripts): 
    NP_001263249.1  NP_061036.3  

    ENSEMBL proteins: 
     ENSP00000326813   ENSP00000356051   ENSP00000375793  

    YOD1 Human Recombinant Protein Products:

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    OTUD: OTU domain containing

    3 InterPro protein domains:
     IPR003323 OTU
     IPR015880 Znf_C2H2-like
     IPR007087 Znf_C2H2

    Graphical View of Domain Structure for InterPro Entry Q5VVQ6

    ProtoNet protein and cluster: Q5VVQ6

    UniProtKB/Swiss-Prot: OTU1_HUMAN, Q5VVQ6
    Domain: The UBAX-like region mediates the interaction with VCP. According to PubMed:19818707, it corresponds to a
    UBX domain, which is a hallmark for VCP-associated proteins. However, no canonical UBX is detected by prediction
    tools such as Pfam or PROSITE
    Domain: The C2H2-type zinc finger mediates specificity for 'Lys-27'-, 'Lys-29'- and 'Lys-33'-linked polyubiquitin
    chains but not for 'Lys-11'-linked ubiquitin chains. Selectivity for 'Lys-11'-linked ubiquitin chains is provided
    by recognition of the sequence surrounding 'Lys-11' in ubiquitin. The S2 site region provides specificity for
    longer 'Lys-11'-linked ubiquitin chains (PubMed:23827681)
    Similarity: Contains 1 C2H2-type zinc finger
    Similarity: Contains 1 OTU domain


    YOD1 for domains           About GeneDecksing


    (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, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: OTU1_HUMAN, Q5VVQ6
    Function: Hydrolase that can remove conjugated ubiquitin from proteins and participates in endoplasmic
    reticulum-associated degradation (ERAD) for misfolded lumenal proteins. May act by triming the ubiquitin chain on
    the associated substrate to facilitate their threading through the VCP/p97 pore. Ubiquitin moieties on substrates
    may present a steric impediment to the threading process when the substrate is transferred to the VCP pore and
    threaded through VCP's axial channel. Mediates deubiquitination of 'Lys-27'-, 'Lys-29'- and 'Lys-33'-linked
    polyubiquitin chains. Also able to hydrolyze 'Lys-11'-linked ubiquitin chains. Cleaves both polyubiquitin and
    di-ubiquitin
    Catalytic activity: 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)

         Enzyme Numbers (IUBMB): EC 3.1.22 EC 3.4.19.121

         Gene Ontology (GO): 3 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0004843ubiquitin-specific protease activity IDA19818707
    GO:0005515protein binding IPI19818707
    GO:0046872metal ion binding IEA--
         
    YOD1 for ontologies           About GeneDecksing


    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for YOD1
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       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for YOD1

    miRNA
    Products:
        
    miRTarBase miRNAs that target YOD1:
    hsa-mir-221-3p (MIRT046938), hsa-mir-21-5p (MIRT031078), hsa-mir-181a-5p (MIRT025189), hsa-mir-361-5p (MIRT020095), hsa-mir-125a-5p (MIRT021311), hsa-mir-30b-5p (MIRT023456), hsa-mir-10a-5p (MIRT047617), hsa-mir-98-5p (MIRT027868), hsa-mir-93-5p (MIRT028105), hsa-mir-24-3p (MIRT030622), hsa-mir-26b-5p (MIRT030163)

    Block miRNA regulation of human, mouse, rat YOD1 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate YOD1 (see all 117):
    hsa-miR-579 hsa-miR-140-5p hsa-miR-100* hsa-miR-607 hsa-miR-520f hsa-miR-520e hsa-miR-3607-3p hsa-miR-3146
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat YOD1

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    Browse Sino Biological Human cDNA Clones
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for YOD1
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat YOD1

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    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for YOD1


    (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 COMPARTMENTS: 

    CompartmentConfidence
    cytosol3
    nucleus3
    plasma membrane3
    endoplasmic reticulum1

    (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 YOD1 About                                                                                                See pathways by source

    SuperPathContained pathways About
    1Protein processing in endoplasmic reticulum
    Protein processing in endoplasmic reticulum

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways



    1 Kegg Pathway  (Kegg details for YOD1):
        Protein processing in endoplasmic reticulum


    YOD1 for pathways           About GeneDecksing

        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for YOD1
    Interactions:

        Search GeneGlobe Interaction Network for YOD1

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

    Selected Interacting proteins for YOD1 (Q5VVQ63 ENSP000003268134) via UniProtKB, MINT, STRING, and/or I2D (see all 52)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    HIST1H4AP628053I2D: score=1 
    HIST1H4BP628053I2D: score=1 
    HIST1H4CP628053I2D: score=1 
    HIST1H4DP628053I2D: score=1 
    HIST1H4EP628053I2D: score=1 
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 9):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006520cellular amino acid metabolic process ISS--
    GO:0030433ER-associated ubiquitin-dependent protein catabolic process IMP19818707
    GO:0030968endoplasmic reticulum unfolded protein response IMP19818707
    GO:0035523protein K29-linked deubiquitination IDA--
    GO:0035871protein K11-linked deubiquitination IDA--

    YOD1 for ontologies           About GeneDecksing



    (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 YOD1 (OTU1)



    (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,
    Conferences by KenesGroup, 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, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for YOD1 gene (2 alternative transcripts): 
    NM_001276320.1  NM_018566.3  

    Unigene Cluster for YOD1:

    YOD1 OTU deubiquinating enzyme 1 homolog (S. cerevisiae)
    Hs.567533  [show with all ESTs]
    Unigene Representative Sequence: NM_001276320
    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000315927(uc001hfe.1) ENST00000367084(uc001hff.1) ENST00000391927

    miRNA
    Products:
         
    Block miRNA regulation of human, mouse, rat YOD1 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate YOD1 (see all 117):
    hsa-miR-579 hsa-miR-140-5p hsa-miR-100* hsa-miR-607 hsa-miR-520f hsa-miR-520e hsa-miR-3607-3p hsa-miR-3146
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat YOD1
    Clone
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    OriGene ORF clones in mouse, rat for YOD1
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: YOD1 (NM_002478)
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat YOD1
    Primer
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    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat YOD1
      QuantiTect SYBR Green Assays in human, mouse, rat YOD1
      QuantiFast Probe-based Assays in human, mouse, rat YOD1

    Additional mRNA sequence: AK128014.1 

    5 DOTS entries:

    DT.95151639  DT.100651383  DT.87017586  DT.410129  DT.91809420 

    Selected AceView cDNA sequences (see all 60):

    AA830040 BX325304 CF143691 AA338005 CR590739 BU677062 CB136300 AF116608 
    BX281286 CB120592 BF436566 CA443491 AL833081 CA450323 AA687363 BX643543 
    BG035362 AA279267 AK128014 AI690940 BU633998 BU754342 BE350156 AI065073 

    GeneLoc Exon Structure


    (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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    YOD1 expression in normal human tissues (normalized intensities)      YOD1 embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: AGTCTACTTT
    YOD1 Expression
    About this image


    YOD1 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 7) fully expand
     
     Brain (Nervous System)    fully expand to see all 3 entries
             Cerebellum
     
     Ovary (Reproductive System)    fully expand to see all 2 entries
             Ovarian Mesenchymal Stroma Cells Ovary Interstitium
             Oviduct
     
     Trophoblast (Extraembryonic Tissues)
             Trophoblast Cells Trophoblast
     
     Testis (Reproductive System)
             Leydig Cells Testis Interstitium
     
     Liver (Hepatobiliary System)
             Hepatocytes Liver Lobule
    YOD1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    YOD1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.567533
        Custom PCR Arrays for YOD1
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for YOD1

    (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 YOD1 gene from Selected species (see all 20)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Yod11 , 5 YOD1 OTU deubiquitinating enzyme 1 homologue (S. cerevisiae)1, 5 87.76(n)1
    88.63(a)1
      1 (56.89 cM)5
    2264181  NM_178691.41  NP_848806.21 
     1307173275 
    chicken
    (Gallus gallus)
    Aves YOD11 YOD1 OTU deubiquinating enzyme 1 homolog (S. cerevisiae) 69.66(n)
    74.09(a)
      428266  NM_001031499.1  NP_001026670.1 
    lizard
    (Anolis carolinensis)
    Reptilia YOD16
    YOD1 deubiquitinase
    74(a)
    1 ↔ 1
    GL343228.1(2100891-2105951)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia yod11 YOD1 deubiquitinase 65.24(n)
    69.64(a)
      100493203  XM_002932122.2  XP_002932168.2 
    zebrafish
    (Danio rerio)
    Actinopterygii yod11 YOD1 OTU deubiquinating enzyme 1 homolog (S. cerevisiae) 65.89(n)
    71.1(a)
      550411  NM_001017716.2  NP_001017716.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG46031 CG4603 51.22(n)
    48.67(a)
      38603  NM_001274506.1  NP_001261435.1 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes OTU1(YFL044C)4
    OTU11
    Deubiquitylation enzyme that binds to the chaperone-ATPase more4
    OTU11
    48.12(n)1
    37.66(a)1
      6(45560-44655)4
    8505001, 4  NP_116610.11, 4 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT1G506701 AT1G50670 53.64(n)
    48.73(a)
      841489  NM_103949.3  NP_175482.1 
    rice
    (Oryza sativa)
    Liliopsida Os02g01648001 Os02g0164800 56.21(n)
    54.9(a)
      4328405  NM_001052527.1  NP_001045992.1 


    ENSEMBL Gene Tree for YOD1 (if available)
    TreeFam Gene Tree for YOD1 (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)
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    Selected SNPs for YOD1 (see all 182)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs28427411,2
    C,F,O,A,H--207216695(+) CGTCCA/GTAATT 2 -- ds500115Minor allele frequency- G:0.13NA EA NS WA 1594
    rs1501956281,2
    --207216713(+) TTTCAA/GTGAGA 2 -- ds50010--------
    rs1158431661,2
    C,F--207216766(+) TCTGGC/TCAATT 2 -- ds50011Minor allele frequency- T:0.01NA 120
    rs1846109231,2
    --207216770(+) GCCAAG/TTGTAA 2 -- ds50010--------
    rs1891288151,2
    --207216808(+) TTTAAA/GTGTTG 2 -- ds50010--------
    rs788196171,2
    F--207216871(+) CAGATC/TTAAGT 2 -- ds50011Minor allele frequency- T:0.01WA 118
    rs1456922631,2
    --207216892(+) TGCAGC/TCTATT 2 -- ds50010--------
    rs782957301,2
    F--207217029(+) AGAAAT/CACCTT 2 -- ds50012Minor allele frequency- C:0.04CSA WA 120
    rs118020371,2
    C,F,H--207217062(+) GAGTCC/TGCCTA 2 -- ds500110Minor allele frequency- T:0.06NS EA NA WA 1208
    rs1166908671,2
    C,F--207217063(+) AGTCCG/ACCTAA 2 -- ds50011Minor allele frequency- A:0.02WA 118

    HapMap Linkage Disequilibrium report for YOD1 (207217194 - 207226325 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for YOD1:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv832426CNV Gain17160897

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing YOD1
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

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    OMIM gene information: 612023    OMIM disorders: --

    2 diseases for YOD1:    About MalaCards
    hiv-1    malaria


    YOD1 for disorders           About GeneDecksing

    Genetic Association Database (GAD): YOD1

    Export disorders for YOD1 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 YOD1 gene, integrated from 10 sources (see all 20):
    (articles sorted by number of sources associating them with YOD1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The otubain YOD1 is a deubiquitinating enzyme that associates with p97 to facilitate protein dislocation from the ER. (PubMed id 19818707)1, 2 Ernst R.... Schlieker C. (Mol. Cell 2009)
    2. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (Nature 2006)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    4. OTU deubiquitinases reveal mechanisms of linkage specificity and enable ubiquitin chain restriction analysis. (PubMed id 23827681)2 Mevissen T.E.... Komander D. (Cell 2013)
    5. A deubiquitinase negatively regulates retro-translocation of nonubiquitinated substrates. (PubMed id 24068323)1 Bernardi K.M....Tsai B. (Mol. Biol. Cell 2013)
    6. Proteome-wide identification of ubiquitylation sites by conjugation of engineered lysine-less ubiquitin. (PubMed id 22053931)1 Oshikawa K....Nakayama K.I. (J. Proteome Res. 2012)
    7. A microarray of ubiquitylated proteins for profiling deubiquitylase activity reveals the critical roles of both chain and substrate. (PubMed id 22626734)1 Loch C.M. and Strickler J.E. (Biochim. Biophys. Acta 2012)
    8. Methods for quantification of in vivo changes in protein ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (amp 2012)
    9. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (BMC Syst. Biol. 2011)
    10. Activity-based chemical proteomics accelerates inhibitor development for deubiquitylating enzymes. (PubMed id 22118674)1 Altun M....Kessler B.M. (amp 2011)

    (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: 55432 HGNC: 25035 AceView: DKFZp451J1719 Ensembl:ENSG00000180667 euGenes: HUgn55432
    ECgene: YOD1 Kegg: 55432 H-InvDB: YOD1

    (According to HUGE)
    About This Section

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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)
    About This Section

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    NameDescription
    PharmGKB entry for YOD1 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 YOD1 gene:
    Search GeneIP for patents involving YOD1

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



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