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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

WDR3 Gene

protein-coding   GIFtS: 55
GCID: GC01P118472

WD repeat domain 3

 Explore 3 diseases affiliated with
WDR3 via our new
 Human Malady Compendium 
Biological research products
for WDR3
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
WD Repeat Domain 31 2
DIP21 2
UTP121 2
FLJ127961
DJ776P7.2 (WD Repeat Domain 3)2
WD Repeat-Containing Protein 32

External Ids:    HGNC: 127551   Entrez Gene: 108852   Ensembl: ENSG000000651837   OMIM: 6047375   UniProtKB: Q9UNX43   

Export aliases for WDR3 gene to outside databases

Previous GC identifers: GC01P118934 GC01P117313 GC01P117622 GC01P117822 GC01P117818 GC01P118184 GC01P116328


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for WDR3:
This gene encodes a nuclear protein containing 10 WD repeats. WD repeats are approximately 30- to 40-amino acid domains
containing several conserved residues, which usually include a trp-asp at the C-terminal end. Proteins belonging to
the WD repeat family are involved in a variety of cellular processes, including cell cycle progression, signal
transduction, apoptosis, and gene regulation. (provided by RefSeq, Jul 2008)

Gene Wiki entry for WDR3


(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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000001.10  NC_018912.1  NT_032977.9  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the WDR3 gene promoter:
         AP-1   FOXD3   LCR-F1   HNF-1A   Roaz   GATA-1   HEN1   Pax-3   HNF-1   Chx10   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidWDR3 promoter sequence
   Search SABiosciences Chromatin IP Primers for WDR3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat WDR3


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

Entrez Gene cytogenetic band: 1p12   Ensembl cytogenetic band:  1p12   HGNC cytogenetic band: 1p12

WDR3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
WDR3 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P118472:  view genomic region     (about GC identifiers)

Start:
118,472,343 bp from pter      End:
118,503,049 bp from pter
Size:
30,707 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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 Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: WDR3_HUMAN, Q9UNX4 (See protein sequence)
Recommended Name: WD repeat-containing protein 3  
Size: 943 amino acids; 106099 Da
Subcellular location: Nucleus, nucleolus

Explore the universe of human proteins at neXtProt for WDR3: NX_Q9UNX4

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9UNX4

  • WDR3 Protein expression data from MOPED and PaxDb:    About this image 
    WDR3 Protein Expression
    REFSEQ proteins: NP_006775.1  
    ENSEMBL proteins: 
     ENSP00000308179   ENSP00000358449  

    Human Recombinant Protein Products for WDR3: 
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    Uscn Proteins for WDR3

    Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--
    GO:0005730nucleolus IDA--
    GO:0031965nuclear membrane IDA--

    WDR3 for ontologies           About GeneDecksing



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    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    WDR3 for domains           About GeneDecksing

    5/6 InterPro domains/families (see all 6):
     IPR019775 WD40_repeat_CS
     IPR001680 WD40_repeat
     IPR020472 G-protein_beta_WD-40_rep
     IPR007148 SSU_processome_Utp12
     IPR017986 WD40_repeat_dom

    Graphical View of Domain Structure for InterPro Entry Q9UNX4

    ProtoNet protein and cluster: Q9UNX4

    1 Blocks protein family: IPB007148 Dip2/Utp12

    UniProtKB/Swiss-Prot: WDR3_HUMAN, Q9UNX4
    Similarity: Belongs to the WD repeat WDR3/UTP12 family
    Similarity: Contains 13 WD repeats


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, Sirion Biotech, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, Sirion Biotech, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    Molecular Function:
         Genatlas biochemistry entry for WDR3:
    WD repeat domain 3,expressed in hematopoietic cell lines and in non hematopoietic tissues,involved in cell cycle
    progression,apoptosis gene regulation

    Phenotypes:
         4 GenomeRNAi human phenotypes for WDR3:
     Decreased viability of wild-ty  Nuclear pre-40S maturation def  Synthetic lethal with Ras  Synthetic lethal with c-Myc af 

         1 MGI mutant phenotype (inferred from 1 allele(MGI details for Wdr3):
     mortality/aging 

    WDR3 for phenotypes           About GeneDecksing

    Animal Models:
       inGenious Targeting Laboratory - Customizable classic, inducible, and humanized mouse model solutions for WDR3 

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    Inhib. RNA
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    Clone
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    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for WDR3


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, 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 Mar 2013 via Entrez Gene).
    About This Section

    Unified GeneCards pathways  About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1Ribosome biogenesis in eukaryotes
    Ribosome biogenesis in eukaryotes1.00

    Pathway sources
    See GeneCards unified pathways
    Show all pathways



    1         Kegg Pathway  (Kegg details for WDR3):
        Ribosome biogenesis in eukaryotes


    WDR3 for pathways           About GeneDecksing

    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for WDR3

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

    5/96 Interacting proteins for WDR3 (Q9UNX42, 3 ENSP000003081794) via UniProtKB, MINT, STRING, and/or I2D (see all 96)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    HIST1H4AP628053I2D: score=1 
    HIST1H4BP628053I2D: score=1 
    HIST1H4CP628053I2D: score=1 
    HIST1H4DP628053I2D: score=1 
    HIST1H4EP628053I2D: score=1 
    About this table

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for WDR3
    Search CenterWatch for drugs/clinical trials and news about WDR3 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 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,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, Sirion Biotech, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for WDR3 gene: 
    NM_006784.2  

    Unigene Cluster for WDR3:

    WD repeat domain 3
    Hs.310809  [show with all ESTs]
    Unigene Representative Sequence: NM_006784
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000487202 ENST00000349139(uc001ehi.2 uc010oxe.1) ENST00000471680
    ENST00000369441(uc001ehh.2)

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    hsa-miR-203 hsa-miR-320a hsa-miR-320b hsa-miR-320d hsa-let-7f-2*
    SwitchGear 3'UTR luciferase reporter plasmidWDR3 3' UTR sequence
    Inhib. RNA
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat WDR3
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    Additional cDNA sequence: 

    AB209201.1 AF083217.1 AK022858.1 AK292438.1 BC058836.1 BC128385.1 BC128454.1 BC148244.1 

    11 DOTS entries:

    DT.95370125  DT.412006  DT.121463746  DT.100022302  DT.100748877  DT.319947  DT.302646  DT.40290469 
    DT.423063  DT.95271952  DT.206431 

    24/111 AceView cDNA sequences (see all 111):

    AA514680 AA743286 AA417908 BM471651 BI093749 BU608104 AK022858 H42013 
    CR620639 BU685685 BX103746 BG105708 AI697107 AI492156 BM543069 BE745523 
    AA916500 AU124711 BF445663 BU160827 AI696723 AI922229 AI624692 AA481598 

    GeneLoc Exon Structure

    5/9 Alternative Splicing Database (ASD) splice patterns (SP) for WDR3 (see all 9)    About this scheme

    ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7a · 7b ^ 8a · 8b ^ 9 ^ 10 ^ 11 ^ 12 ^ 13a · 13b · 13c ^ 14a · 14b ^ 15 ^ 16 ^ 17a · 17b ^ 18 ^
    SP1:                                                                                                                                                            
    SP2:              -     -     -           -                                                                                                                     
    SP3:                                                                                                                                                            
    SP4:                                                                                                                                                            
    SP5:                                                                                                                                                            

    ExUns: 19 ^ 20 ^ 21 ^ 22 ^ 23 ^ 24 ^ 25 ^ 26 ^ 27 ^ 28 ^ 29 ^ 30 ^ 31 ^ 32
    SP1:                                                                                    
    SP2:                                                                                    
    SP3:                                                                          -         
    SP4:                                                                                    
    SP5:                                                                                    


    ECgene alternative splicing isoforms for WDR3

    (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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    WDR3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GATCTTAGAG
    WDR3 Expression
    About this image
    See WDR3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for WDR3

    SOURCE GeneReport for Unigene cluster: Hs.310809

    UniProtKB/Swiss-Prot: WDR3_HUMAN, Q9UNX4
    Tissue specificity: Ubiquitous

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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for WDR3

    (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)
    About This Section

    This gene was present in the common ancestor of eukaryotes.

    Orthologs for WDR3 gene from 9/34 species (see all 34)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves WDR31 WD repeat domain 3 75.2(n)
    80.28(a)
      427952  NM_001031485.1  NP_001026656.1 
    lizard
    (Anolis carolinensis)
    Reptilia WDR36
    TBL36
    --
    75(a)
    15(a)
    1 ↔ 1
    possible ortholog
    GL343218.1(879296-910288)
    GL344276.1(73199-85629)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.48342 Xenopus laevis transcribed sequence with moderate similarity more 74.82(n)    CD303393.1 
    zebrafish
    (Danio rerio)
    Actinopterygii wdr32 WD repeat domain 3 75.68(n)   321058  BC057490.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG80641 , 3 CG80641 41(a)3
    50.67(n)1
    44.97(a)1
      91A13
    421961  NM_142448.31  NP_650705.11 
    worm
    (Caenorhabditis elegans)
    Secernentea F13H8.21 , 3 beta transducin Trp-Asp domains3
    Protein F13H8.21
    33(a)3
    48.9(n)1
    35.82(a)1
      II(6270322-6273677)3
    1740381  NM_062855.31  NP_495256.11 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes DIP2(YLR129W)4
    DIP21
    Nucleolar protein, specifically associated with the more4
    Dip2p1
    50.98(n)1
    41.61(a)1
      12(399657-402488)4
    8508201, 4  NP_013230.11, 4 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT3G215401 transducin/WD40 domain-containing protein 49.56(n)
    41.69(a)
      821708  NM_113049.3  NP_188791.3 
    rice
    (Oryza sativa)
    Liliopsida Os.96222 Oryza sativa (japonica cultivar-group) isolate 29961 more 75.27(n)    AK101270.1 


    ENSEMBL Gene Tree for WDR3 (if available)
    TreeFam Gene Tree for WDR3 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
      --

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/537 NCBI SNPs in WDR3 are shown (see all 537    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs795792751,2
    F--118470575(+) AAACAT/CTGTAT 3 -- us2k1 int11Minor allele frequency- C:0.06WA 118
    rs1851635891,2
    --118470702(+) AGATAA/GTTTTT 3 -- int1 us2k10--------
    rs1142847211,2
    C,F--118470832(+) TAGAGC/AANNNN 3 -- us2k1 int11Minor allele frequency- A:0.02NA 120
    rs37541261,2
    C,H--118470868(+) GCAAAA/CCTTCC 3 -- us2k1 int14Minor allele frequency- C:0.00NS EA 420
    rs1923774911,2
    --118470910(+) ACAATA/GATTAT 3 -- int1 us2k10--------
    rs765675461,2
    --118470967(+) TTTTTA/GGAATT 3 -- us2k1 int10--------
    rs741130951,2
    C--118471038(+) ACTTCT/CCCCCA 3 -- int1 us2k14Minor allele frequency- C:0.05WA NA EA 360
    rs1836423731,2
    --118471061(+) GCACAA/GCACCT 3 -- int1 us2k10--------
    rs1467733431,2
    --118471085(+) ACCATA/TCATAC 3 -- us2k1 int10--------
    rs37541271,2
    C,F,H--118471212(+) TACAGC/TTGTCC 3 -- int1 us2k123Minor allele frequency- T:0.22EA NA NS WA 3784

    HapMap Linkage Disequilibrium report for WDR3 (118472343 - 118503049 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for WDR3
         1 CNV: 47888

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    (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.)
    About This Section

    WDR3 for disorders           About GeneDecksing

    OMIM gene information: 604737    OMIM disorders: --

    3 diseases for WDR3:    About MalaCards
    thyroid cancer    thyroiditis    malaria

    Human Genome Epidemiology (HuGE) Navigator: WDR3 (1 document)

    Export disorders for WDR3 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)
    About This Section

    PubMed articles for WDR3 gene, integrated from 9 sources (see all 32):
    (articles sorted by number of sources associating them with WDR3)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Cloning and expression analysis of a novel WD repeat gene, WDR3, mapping to 1p12-p13. (PubMed id 10395803)1, 2, 3 Claudio J.O....Hawley R.G. (1999)
    2. Functional proteomic analysis of human nucleolus. (PubMed id 12429849)1, 2 Scherl A.... Diaz J.-J. (2002)
    3. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
    4. Host cell interactome of HIV-1 Rev includes RNA helica ses involved in multiple facets of virus production. (PubMed id 22174317)1 Naji S....Gerace L. (2012)
    5. Methods for quantification of in vivo changes in prote in ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (2012)
    6. Functional proteomics establishes the interaction of S IRT7 with chromatin remodeling complexes and expands its role in regulation of R NA polymerase I transcription. (PubMed id 22586326)1 Tsai Y.C....Cristea I.M. (2012)
    7. Integrative analysis of the ubiquitin proteome isolat ed using Tandem Ubiquitin Binding Entities (TUBEs). (PubMed id 22178446)1 Lopitz-Otsoa F....Rodriguez M.S. (2011)
    8. A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
    9. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    10. System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PubMed id 21406692)2 Rigbolt K.T....Blagoev B. (2011)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 10885 HGNC: 12755 AceView: WDR3 Ensembl:ENSG00000065183 euGenes: HUgn10885
    ECgene: WDR3 Kegg: 10885 H-InvDB: WDR3

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for WDR3 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for WDR3 gene:
    Search GeneIP for patents involving WDR3

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



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    GeneCards Homepage - Last full update: 19 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013 , 14 May 2013

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