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WDR55 Gene

protein-coding   GIFtS: 47
GCID: GC05P140044

WD Repeat Domain 55

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(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
WD Repeat Domain 551 2
WD Repeat-Containing Protein 552

External Ids:    HGNC: 259711   Entrez Gene: 548532   Ensembl: ENSG000001203147   UniProtKB: Q9H6Y23   

Export aliases for WDR55 gene to outside databases

Previous GC identifers: GC05P140026 GC05P135189


(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 WDR55 Gene:
WDR55 (WD repeat domain 55) is a protein-coding gene.

UniProtKB/Swiss-Prot: WDR55_HUMAN, Q9H6Y2
Function: Nucleolar protein that acts as a modulator of rRNA synthesis. Plays a central role during organogenesis
(By similarity)




(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_000005.9  NT_029289.12  NC_018916.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the WDR55 gene promoter:
         CREB   AP-1   ATF-2   deltaCREB   c-Jun   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidWDR55 promoter sequence
   Search Chromatin IP Primers for WDR55

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat WDR55


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

Entrez Gene cytogenetic band: 5q31.3   Ensembl cytogenetic band:  5q31.3   HGNC cytogenetic band: 5q31.3

WDR55 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
WDR55 gene location

GeneLoc information about chromosome 5         GeneLoc Exon Structure

GeneLoc location for GC05P140044:  view genomic region     (about GC identifiers)

Start:
140,044,261 bp from pter      End:
140,053,709 bp from pter
Size:
9,449 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: WDR55_HUMAN, Q9H6Y2 (See protein sequence)
Recommended Name: WD repeat-containing protein 55  
Size: 383 amino acids; 42070 Da
Secondary accessions: Q9NXK4
Alternative splicing: 2 isoforms:  Q9H6Y2-1   Q9H6Y2-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for WDR55: NX_Q9H6Y2

Explore proteomics data for WDR55 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys320
  • Modification sites at PhosphoSitePlus

  • See WDR55 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_060176.2  
    ENSEMBL proteins: 
     ENSP00000351100   ENSP00000426304   ENSP00000439719  

    WDR55 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:
    WDR: WD repeat domain containing

    5 InterPro protein domains:
     IPR019775 WD40_repeat_CS
     IPR017422 WD_repeat_p55
     IPR001680 WD40_repeat
     IPR017986 WD40_repeat_dom
     IPR015943 WD40/YVTN_repeat-like_dom

    Graphical View of Domain Structure for InterPro Entry Q9H6Y2

    ProtoNet protein and cluster: Q9H6Y2

    UniProtKB/Swiss-Prot: WDR55_HUMAN, Q9H6Y2
    Similarity: Belongs to the WD repeat WDR55 family
    Similarity: Contains 7 WD repeats


    Find genes that share domains with WDR55           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: WDR55_HUMAN, Q9H6Y2
    Function: Nucleolar protein that acts as a modulator of rRNA synthesis. Plays a central role during organogenesis
    (By similarity)

         Gene Ontology (GO): 2 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003674molecular_function ND--
    GO:0005515protein binding ----
         
    Find genes that share ontologies with WDR55           About GenesLikeMe


    Phenotypes:
         1 MGI mutant phenotype (inferred from 1 allele(MGI details for Wdr55):
     mortality/aging 

    Find genes that share phenotypes with WDR55           About GenesLikeMe

    Animal Models:
         MGI mouse knock-out Wdr55tm1Matn for WDR55

       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for WDR55
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       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for WDR55

    miRNA
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    miRTarBase miRNAs that target WDR55:
    hsa-let-7b-5p (MIRT052095)

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    6 qRT-PCR Assays for microRNAs that regulate WDR55:
    hsa-miR-656 hsa-miR-138 hsa-miR-331-3p hsa-miR-431 hsa-miR-626 hsa-miR-29b-1*
    SwitchGear 3'UTR luciferase reporter plasmidWDR55 3' UTR sequence
    Inhib. RNA
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    (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
    WDR55_HUMAN, Q9H6Y2: Nucleus, nucleolus (By similarity). Cytoplasm (By similarity)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus4
    cytosol2

    Gene Ontology (GO): 3 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005575cellular_component ND--
    GO:0005730nucleolus ISS--
    GO:0005737cytoplasm IEA--

    Find genes that share ontologies with WDR55           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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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for WDR55
    Interactions:

        Search GeneGlobe Interaction Network for WDR55

    STRING Interaction Network Preview (showing 5 interactants - click image to see 11)

    Selected Interacting proteins for WDR55 (ENSP000003511004) via UniProtKB, MINT, STRING, and/or I2D (see all 11)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    NIFKENSP000002858144STRING: ENSP00000285814
    DDB1ENSP000003017644STRING: ENSP00000301764
    DLG5ENSP000003614674STRING: ENSP00000361467
    KIAA0020ENSP000003809824STRING: ENSP00000380982
    NSMCE4AENSP000003580194STRING: ENSP00000358019
    About this table

    Gene Ontology (GO): 2 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006364rRNA processing ISS--
    GO:0008150biological_process ND--

    Find genes that share ontologies with WDR55           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 WDR55



    (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 WDR55 gene: 
    NM_017706.4  

    Unigene Cluster for WDR55:

    WD repeat domain 55
    Hs.286261  [show with all ESTs]
    Unigene Representative Sequence: NM_017706
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000358337(uc003lgr.4 uc011czl.1) ENST00000506393 ENST00000511232
    ENST00000504897 ENST00000520764
    miRNA
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    Block miRNA regulation of human, mouse, rat WDR55 using miScript Target Protectors
    6 qRT-PCR Assays for microRNAs that regulate WDR55:
    hsa-miR-656 hsa-miR-138 hsa-miR-331-3p hsa-miR-431 hsa-miR-626 hsa-miR-29b-1*
    SwitchGear 3'UTR luciferase reporter plasmidWDR55 3' UTR sequence
    Inhib. RNA
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    Primer
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    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat WDR55
      QuantiTect SYBR Green Assays in human, mouse, rat WDR55
      QuantiFast Probe-based Assays in human, mouse, rat WDR55

    Additional mRNA sequence: 

    AK000202.1 AK025355.1 AK293417.1 BC041687.1 BC068485.1 FJ423749.1 

    13 DOTS entries:

    DT.456090  DT.100682955  DT.95171401  DT.97819569  DT.91719427  DT.100030877  DT.120887657  DT.100668929 
    DT.100783761  DT.91803062  DT.92420563  DT.120887538  DT.120887686 

    Selected AceView cDNA sequences (see all 33):

    AA573174 AI700432 BM672415 CA944461 AW449637 BI334121 BX103684 BG008915 
    BM793305 BF431619 BP359770 BU178095 BP338430 AK000202 BE897727 H61209 
    BM686421 BG008921 AL524159 BE535907 BE870867 BG392972 BG008909 AI908013 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for WDR55    About this scheme

    ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b ^ 7
    SP1:                                                                  
    SP2:                                                                  
    SP3:                                                                  
    SP4:                                                                  


    ECgene alternative splicing isoforms for WDR55

    (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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    WDR55 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    WDR55 Expression
    About this image

    WDR55 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    WDR55 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.286261
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    In Situ
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    (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 WDR55 gene from Selected species (see all 17)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Wdr551 , 5 WD repeat domain 551, 5 83.12(n)1
    88.25(a)1
      18 (19.46 cM)5
    679361  NM_026464.21  NP_080740.21 
     367602395 
    chicken
    (Gallus gallus)
    Aves WDR551 WD repeat domain 55 69.8(n)
    68.24(a)
      100858589  XM_003642039.2  XP_003642087.2 
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.156462 Xenopus laevis transcribed sequence with weak similarity more 75.86(n)    48062431 
    zebrafish
    (Danio rerio)
    Actinopterygii wdr551 WD repeat domain 55 62.17(n)
    63.07(a)
      445394  NM_001003871.2  NP_001003871.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG147221 CG14722 46.76(n)
    34.93(a)
      41419  NM_141854.4  NP_650111.3 
    worm
    (Caenorhabditis elegans)
    Secernentea Y44F5A.16
    Protein Y44F5A.1 (Y44F5A.1) mRNA, complete cds
    23(a)
    1 ↔ 1
    III(4244857-4247671) WBGene00012858
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT2G342601 AT2G34260 47.95(n)
    38.36(a)
      817987  NM_128977.3  NP_565782.1 
    rice
    (Oryza sativa)
    Liliopsida Os07g06607001 Os07g0660700 46.78(n)
    39.66(a)
      4344178  NM_001067068.1  NP_001060533.1 


    ENSEMBL Gene Tree for WDR55 (if available)
    TreeFam Gene Tree for WDR55 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for WDR55 gene

    Find genes that share paralogs with WDR55           About GenesLikeMe


    1 Pseudogenes.org Pseudogene for WDR55
    PGOHUM00000241093


    (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 WDR55 (see all 191)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 5 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1505700481,2
    --140042647(+) TTTGCC/TAAGGC 1 -- us2k10--------
    rs1139390901,2
    F--140042864(+) CTTGTC/ATTTGA 1 -- us2k13Minor allele frequency- A:0.05CSA WA 120
    rs757247051,2
    --140043068(+) GACATC/GTGGAG 1 -- us2k10--------
    rs780426761,2
    F--140043072(+) TCTGGA/GGAGTC 1 -- us2k11Minor allele frequency- G:0.01WA 118
    rs1140798271,2
    C,F--140043134(+) AGGCTC/TGATGG 1 -- us2k11Minor allele frequency- T:0.03WA 118
    rs1918591531,2
    --140043142(+) TGGCTC/TATGCC 1 -- us2k10--------
    rs1177448551,2
    F--140043221(+) GCTATG/ACAGGA 1 -- us2k11Minor allele frequency- A:0.01EA 120
    rs787800711,2
    F--140043237(+) GAACCG/AAAGAG 1 -- us2k11Minor allele frequency- A:0.01WA 118
    rs346784181,2
    C,F--140043350(+) GCTCAC/TGCCTA 1 -- us2k15Minor allele frequency- T:0.15WA NA CSA EA 246
    rs788990111,2
    --140043430(+) ACTGAG/TTCCTC 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for WDR55 (140044261 - 140053709 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for WDR55:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv471435CNV Duplication19718026

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing WDR55
    DNA2.0 Custom Variant and Variant Library Synthesis for WDR55

    (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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    Find genes that share disorders with WDR55           About GenesLikeMe

    Genetic Association Database (GAD): WDR55
    Human Genome Epidemiology (HuGE) Navigator: WDR55 (2 documents)

    Export disorders for WDR55 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 WDR55 gene, integrated from 10 sources (see all 15):
    (articles sorted by number of sources associating them with WDR55)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Gene variants associated with ischemic stroke: the cardiovascular health study. (PubMed id 19023099)1, 4 Luke M.M....Psaty B.M. ( a journal of cerebral circulation 2009)
    2. Association of gene variants with incident myocardial infarction in the Cardiovascular Health Study. (PubMed id 17975119)1, 4 Shiffman D....Psaty B.M. (Arterioscler. Thromb. Vasc. Biol. 2008)
    3. 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)
    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. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
    6. The protein interaction landscape of the human CMGC kinase group. (PubMed id 23602568)1 Varjosalo M....Gstaiger M. (Cell Rep 2013)
    7. A bead-based approach for large-scale identification of in vitro kinase substrates. (PubMed id 22113938)1 Zhang M....Zou H. (Proteomics 2011)
    8. System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PubMed id 21406692)2 Rigbolt K.T....Blagoev B. (Sci. Signal. 2011)
    9. A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (amp 2011)
    10. Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (Sci. Signal. 2010)

    (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)
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    Entrez Gene: 54853 HGNC: 25971 AceView: FLJ20195 Ensembl:ENSG00000120314 euGenes: HUgn54853
    ECgene: WDR55 H-InvDB: WDR55

    (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 WDR55 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for WDR55 gene:
    Search GeneIP for patents involving WDR55

    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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