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

WDR88 Gene

protein-coding   GIFtS: 44
GCID: GC19P033622

WD Repeat Domain 88

(Previous name: PQQ repeat and WD repeat domain containing)
(Previous symbol: PQWD)
  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)
About This Section

Aliases
WD Repeat Domain 881 2
PQWD1 2 3
PQQ Repeat And WD Repeat Domain Containing1 2
PQQ Repeat And WD Repeat-Containing Protein2 3
WD Repeat-Containing Protein 882

External Ids:    HGNC: 269991   Entrez Gene: 1262482   Ensembl: ENSG000001663597   UniProtKB: Q6ZMY63   

Export aliases for WDR88 gene to outside databases

Previous GC identifers: GC19P038316 GC19P030125


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

GeneCards Summary for WDR88 Gene: 
WDR88 (WD repeat domain 88) is a protein-coding gene. Diseases associated with WDR88 include fanconi's anemia, and anemia. An important paralog of this gene is WDSUB1.


(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000019.9  NT_011109.16  NC_018930.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the WDR88 gene promoter:
         SRF   GATA-3   SRF (504 AA)   GATA-1   GATA-2   FOXC1   FOXO4   HSF2   Ik-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidWDR88 promoter sequence
   Search SABiosciences Chromatin IP Primers for WDR88

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat WDR88


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

Entrez Gene cytogenetic band: 19q13.11   Ensembl cytogenetic band:  19q13.11   HGNC cytogenetic band: 19q13.11

WDR88 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
WDR88 gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19P033622:  view genomic region     (about GC identifiers)

Start:
33,622,996 bp from pter      End:
33,666,705 bp from pter
Size:
43,710 bases      Orientation:
plus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: WDR88_HUMAN, Q6ZMY6 (See protein sequence)
Recommended Name: WD repeat-containing protein 88  
Size: 472 amino acids; 52621 Da
Sequence caution: Sequence=AAH31227.2; Type=Erroneous initiation; Note=Translation N-terminally shortened;
Secondary accessions: Q8NEF8
Alternative splicing: 2 isoforms:  Q6ZMY6-1   Q6ZMY6-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for WDR88: NX_Q6ZMY6

Explore proteomics data for WDR88 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q6ZMY6

  • WDR88 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    WDR88 Protein Expression
    REFSEQ proteins: NP_775750.3  
    ENSEMBL proteins: 
     ENSP00000467383   ENSP00000355148   ENSP00000348129  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    WDR: WD repeat domain containing

    5/7 InterPro protein domains (see all 7):
     IPR019775 WD40_repeat_CS
     IPR018391 PQQ_beta_propeller_repeat
     IPR001680 WD40_repeat
     IPR002372 PQQ_repeat
     IPR020472 G-protein_beta_WD-40_rep

    Graphical View of Domain Structure for InterPro Entry Q6ZMY6

    ProtoNet protein and cluster: Q6ZMY6

    1 Blocks protein domain: IPB002372 Bacterial quinoprotein

    UniProtKB/Swiss-Prot: WDR88_HUMAN, Q6ZMY6
    Similarity: Contains 7 WD repeats


    WDR88 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,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, 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, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

         Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding ----
         
    WDR88 for ontologies           About GeneDecksing


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    (Pathways according to EMD Millipore, 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 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 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for WDR88

    STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

    1 Interacting protein for WDR88 (Q6ZMY63 ENSP000003481294) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    UBCP0CG483, ENSP000003448184I2D: score=1 STRING: ENSP00000344818
    About this table

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, 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 WDR88

    Search CenterWatch for drugs/clinical trials and news about WDR88

    (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,
    RNAi Products from EMD Millipore,
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    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for WDR88 gene: 
    NM_173479.3  

    Unigene Cluster for WDR88:

    WD repeat domain 88
    Hs.211046  [show with all ESTs]
    Unigene Representative Sequence: AK131444
    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000592765 ENST00000361680 ENST00000355868(uc002nui.3)
    miRNA
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    Inhib. RNA
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      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat WDR88

    Additional mRNA sequence: 

    AK131444.1 BC031227.1 

    2 DOTS entries:

    DT.95359841  DT.75128521 

    9 AceView cDNA sequences:

    AI982942 AI825732 BC031227 BI826378 BI560259 BI460849 AK131444 BX109140 
    NM_173479 

    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™, 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

    WDR88 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: AGAAGCCTGA
    WDR88 Expression
    About this image


    See WDR88 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for WDR88

    SOURCE GeneReport for Unigene cluster: Hs.211046
        SABiosciences Custom PCR Arrays for WDR88
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for WDR88

    (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 animals.

    Orthologs for WDR88 gene from 3/8 species (see all 8)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Wdr881 , 5 WD repeat domain 881, 5 77.04(n)1
    69.58(a)1
      7 (21.21 cM)5
    3846051  XM_001480144.21  XP_001480194.11 
     352362335 
    lizard
    (Anolis carolinensis)
    Reptilia WDR886
    Uncharacterized protein
    50(a)
    1 ↔ 1
    GL343469.1(664453-672445)
    worm
    (Caenorhabditis elegans)
    Secernentea qui-16
    Protein QUI-1
    5(a)
    1 ↔ 1
    IV(13561861-13574419)


    ENSEMBL Gene Tree for WDR88 (if available)
    TreeFam Gene Tree for WDR88 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for WDR88 gene
    WDSUB12  
    7 SIMAP similar genes for WDR88 using alignment to 2 protein entries:     WDR88_HUMAN (see all proteins):
    WSB1    PF20    POC1B    WDR38    WDR5    WDR83
    DKFZp762M0115

    WDR88 for paralogs           About GeneDecksing



    (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) 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

    10/1027 SNPs in WDR88 are shown (see all 1027)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    VAR_0358924
    A breast cancer sample4--see VAR_0358922 D H mis40--------
    rs1883606951,2
    --33621957(+) GCACTC/TTGGGA 1 -- us2k10--------
    rs1931565781,2
    --33621967(+) AGGCCA/GAGGCC 1 -- us2k10--------
    rs1837067881,2
    --33622128(+) GAACCC/TTGGAG 1 -- us2k10--------
    rs1386628871,2
    C--33622186(+) TGACA-/AGAG  
            
    GACTC
    1 -- us2k10--------
    rs711761981,2
    C--33622188(+) ACAGAGAGA/-  
            
    CTCTT
    1 -- us2k11Minor allele frequency- -:0.00NA 2
    rs346590051,2
    C--33622223(+) AAAAA-/A/GGAAGG 1 -- us2k11NA 2
    rs1489016851,2
    --33622323(+) GCTGTC/TATCTG 1 -- us2k10--------
    rs790968331,2
    C--33622368(+) TTGGGC/GTTGTG 1 -- us2k10--------
    rs104114041,2
    H--33622374(+) TTGTGA/GCAGAT 1 -- us2k1 tfbs34Minor allele frequency- G:0.00NS EA 418

    HapMap Linkage Disequilibrium report for WDR88 (33622996 - 33666705 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 5 variations for WDR88:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2677868CNV Deletion23128226
    esv2657217CNV Deletion23128226
    esv2718468CNV Deletion23290073
    nsv828525CNV Loss20364138
    nsv833808CNV Loss17160897

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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
    2 diseases for WDR88:    About MalaCards
    fanconi's anemia    anemia


    WDR88 for disorders           About GeneDecksing

    Genetic Association Database (GAD): WDR88

    Export disorders for WDR88 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 WDR88 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with WDR88)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. 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. (2002)
    2. Interactions of pathological hallmark proteins: tubul in polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (2011)
    3. TLR8-dependent TNF-(alpha) overexpression in Fanconi anemia group C cells. (PubMed id 19850743)1 Vanderwerf S.M....Bagby G.C. (2009)
    4. The consensus coding sequences of human breast and colorectal cancers. (PubMed id 16959974)2 Sjoeblom T.... Velculescu V.E. (2006)
    5. The DNA sequence and biology of human chromosome 19. (PubMed id 15057824)2 Grimwood J.... Lucas S.M. (2004)
    6. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
    7. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (2004)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     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)
    About This Section
    Entrez Gene: 126248 HGNC: 26999 AceView: LOC126248 Ensembl:ENSG00000166359 euGenes: HUgn126248
    ECgene: WDR88 H-InvDB: WDR88

    (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 WDR88 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 WDR88 gene:
    Search GeneIP for patents involving WDR88

    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, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
    About This Section

     
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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    (GIFtS: 73)
    transforming growth factor, beta 1
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