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

WDR16 Gene

protein-coding   GIFtS: 46
GCID: GC17P009479

WD repeat domain 16
 Explore 3 diseases affiliated with
WDR16 via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for WDR16    

Aliases
for WDR16 gene

(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 161 2
WDRPUH1 2 3 5
WD40-Repeat Protein Up-Regulated In HCC2 3
FLJ375281
WD Repeat-Containing Protein 162
WD40-Repeat Protein Upregulated In HCC2

External Ids:    HGNC: 160531   Entrez Gene: 1468452   Ensembl: ENSG000001665967   OMIM: 6098045   UniProtKB: Q8N1V23   

Export aliases for WDR16 gene to outside databases

Previous GC identifers: GC00U991035 GC17P009422


Summaries
for WDR16 gene

(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 WDR16:
WD repeat-containing proteins, such as WDR16, play crucial roles in a wide range of physiologic functions, including
signal transduction, RNA processing, remodeling the cytoskeleton, regulation of vesicular traffic, and cell division
(Silva et al., 2005 (PubMed 15967112)).(supplied by OMIM, Mar 2008)

UniProtKB/Swiss-Prot: WDR16_HUMAN, Q8N1V2
Function: May play an essential role in the growth or survival of hepatocellular carcinoma (HCC)




Genomic Views
for WDR16 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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000017.10  NC_018928.1  NT_010718.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the WDR16 gene promoter:
         HOXA3   MEF-2   YY1   Gfi-1   MEF-2A   POU2F1   POU2F1a   FOXJ2 (long isoform)   aMEF-2   FOXJ2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: WDR16 promoter sequence
   Search SABiosciences Chromatin IP Primers for WDR16

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat WDR16


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

Entrez Gene cytogenetic band: 17p13.1   Ensembl cytogenetic band:  17p13.1   HGNC cytogenetic band: 17p13.1

WDR16 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
WDR16 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17P009479:  view genomic region     (about GC identifiers)

Start:
 9,479,944 bp from pter      End:
 9,546,776 bp from pter
Size:
 66,833 bases      Orientation:
 plus strand

Proteins
for WDR16 gene

(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: WDR16_HUMAN, Q8N1V2 (See protein sequence)
Recommended Name: WD repeat-containing protein 16  
Size: 620 amino acids; 68298 Da
Subcellular location: Cytoplasm
Miscellaneous: May be a good candidate as a diagnostic marker for HCC as well as a potential molecular target for
development of novel therapeutic drugs
Sequence caution: Sequence=BAB85083.1; Type=Frameshift; Positions=183;
Secondary accessions: B2RDU7 Q5DX23 Q8TC73 Q8TCI3
Alternative splicing: 3 isoforms:  Q8N1V2-1   Q8N1V2-2   Q8N1V2-3   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for WDR16: NX_Q8N1V2

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q8N1V2

    • WDR16 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (2 alternative transcripts): 
    NP_001074025.1  NP_659491.4  

    ENSEMBL proteins: 
     ENSP00000379521   ENSP00000339449   ENSP00000459671   ENSP00000459347   ENSP00000458398  
     ENSP00000458343   ENSP00000468193   ENSP00000299764  

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    Novus Biologicals WDR16 Protein
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    Browse ProSpec Recombinant Proteins
    Uscn Proteins for WDR16

    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005737cytoplasm IDA--
    GO:0043231intracellular membrane-bounded organelle IDA--


    WDR16 for ontologies           About GeneDecksing



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    Uscn ELISAs and CLIAs for WDR16

    Protein Domains /
    Families
    for WDR16 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    WDR16 for domains           About GeneDecksing

    4 InterPro domains/families:
     IPR019775 WD40_repeat_CS
     IPR001680 WD40_repeat
     IPR017986 WD40_repeat_dom
     IPR015943 WD40/YVTN_repeat-like_dom

    Graphical View of Domain Structure for InterPro Entry Q8N1V2

    ProtoNet protein and cluster: Q8N1V2

    1 Blocks protein family: IPB000408 Regulator of chromosome condensation

    UniProtKB/Swiss-Prot: WDR16_HUMAN, Q8N1V2
    Similarity: Contains 11 WD repeats


    Function
    for WDR16 gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    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, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section
    Function Summary:

         UniProtKB/Swiss-Prot: WDR16_HUMAN, Q8N1V2
    Function: May play an essential role in the growth or survival of hepatocellular carcinoma (HCC)

    miRNA
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    hsa-miR-539
    SwitchGear 3'UTR luciferase reporter plasmid: WDR16 3' UTR sequence
    Inhib. RNA
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    Gene Editing
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    Clone
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    Cell Line
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    Search LifeMap BioReagents cell lines for WDR16

    In Situ Assay
    Products:       
         		Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for WDR16

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding IPI15967112


    WDR16 for ontologies           About GeneDecksing


    1 GenomeRNAi human phenotype for WDR16:
     Increased number of cells in m 


    Pathways & Interactions
    for WDR16 gene

    (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



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for WDR16

    STRING Interaction Network Preview (showing 4 interactants - click image to see more details)

    5 Interacting proteins for WDR16 (Q8N1V23 ENSP000003394494) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    HSPA1AP081073, ENSP000003648024I2D: score=1 STRING: ENSP00000364802
    BRCA2P515873, ENSP000003694974I2D: score=1 STRING: ENSP00000369497
    HSPA1BP081073I2D: score=1 
    CCT4P509913, ENSP000003779584I2D: score=1 STRING: ENSP00000377958
    FOSBENSP000002459194STRING: ENSP00000245919
    About this table

    Drugs & Compounds
    for WDR16 gene

    (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 WDR16
    Search CenterWatch for drugs/clinical trials and news about WDR16 

    Transcripts
    for WDR16 gene

    (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, 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 WDR16 gene (2 alternative transcripts): 
    NM_001080556.1  NM_145054.4  

    Unigene Cluster for WDR16:

    WD repeat domain 16
    Hs.232270  [show with all ESTs]
    Unigene Representative Sequence: AK094847
    11 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000396219 ENST00000352665(uc002gly.3 uc002glz.3) ENST00000575247
    ENST00000574937 ENST00000572333 ENST00000576630(uc010coc.3) ENST00000576499
    ENST00000576320 ENST00000576714 ENST00000574097 ENST00000299764

    miRNA
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    1 QIAGEN miScript miRNA Assays for microRNA that regulate WDR16:
    hsa-miR-539
    SwitchGear 3'UTR luciferase reporter plasmid: WDR16 3' UTR sequence
    Inhib. RNA
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    Clone
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    Primer
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    Additional cDNA sequence: 

    AB065281.1 AK074435.1 AK094847.1 AK315679.1 BC025392.2 

    6 DOTS entries:

    DT.100018101  DT.97814285  DT.100010615  DT.407611  DT.75100830  DT.91642768 

    24/65 AceView cDNA sequences (see all 65):

    BU608435 BM664887 AI460076 BM702192 BE348232 BQ186259 BU684845 AW665127 
    AI032899 BC039653 AJ583817 AA677708 BU683791 BX095772 CA406696 AI989955 
    BI830454 BX283353 AW673231 AI217738 AI032712 AK074435 AA776448 BG831111 

    GeneLoc Exon Structure

    3 Alternative Splicing Database (ASD) splice patterns (SP) for WDR16    About this scheme

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


    ECgene alternative splicing isoforms for WDR16

    Expression
    for WDR16 gene

    (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

    WDR16 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GATATCACAC

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)
    About this image

    WDR16 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    Stem Cell Differentiation: 1 LifeMap Cell 
    NameCategory
    Posterior foregut-like cells (A scalable, suspensi...)
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See WDR16 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for WDR16

    SOURCE GeneReport for Unigene cluster: Hs.232270

    UniProtKB/Swiss-Prot: WDR16_HUMAN, Q8N1V2
    Tissue specificity: Highly expressed in testis. Up-regulated in hepatocellular carcinoma (HCC)

        SABiosciences Custom PCR Arrays for WDR16
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    In Situ
    Assay Products:     
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    Orthologs
    for WDR16 gene

    (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 WDR16 gene from 5/20 species (see all 20)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    chicken
    (Gallus gallus)    		 Aves WDR161 WD repeat domain 16 71.96(n)
    71.19(a)    		   417322  XM_415591.2  XP_415591.2 
    lizard
    (Anolis carolinensis)    		 Reptilia WDR166
    		 --
    		 72(a)
    		 1 ↔ 1
    		 2(105683763-105721876)
    African clawed frog
    (Xenopus laevis)    		 Amphibia CF290247.12   -- 75.11(n)    CF290247.1 
    zebrafish
    (Danio rerio)    		 Actinopterygii wufj15f102 Transcribed sequence with weak similarity to protein more 78.37(n)    BQ481255.1 
    fruit fly
    (Drosophila melanogaster)    		 Insecta CG100641 CG10064 50.14(n)
    38.99(a)    		   38761  NM_139808.1  NP_648065.1 


    ENSEMBL Gene Tree for WDR16 (if available)
    TreeFam Gene Tree for WDR16 (if available) 

    Paralogs
    for WDR16 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for WDR16 gene
    EML32  EML52  MAPKBP12  EML22  WDR622  EML62  EML42  WDR902  
    EML12  

    WDR16 for paralogs           About GeneDecksing



    Genomic Variants
    for WDR16 gene

    (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

    10/1229 NCBI SNPs in WDR16 are shown (see all 1229)     About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 17 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs2020016321,2
    		--9481411(+) TCAAA-/AAAT  
                AAATA     		2 -- int10--------
    rs1876134411,2
    		--9481420(+) TAAATA/GAATAA 2 -- int10--------
    rs768831051,2
    		C,F,--9481431(+) ATAAAC/TAAACA 2 -- int13Minor allele frequency- T:0.14WA CSA 122
    rs1155431101,2
    		C,--9481527(+) GTAATA/CTATCA 2 -- int10--------
    rs1926306591,2
    		--9481618(+) CATGAC/TGGCAC 2 -- int10--------
    rs1856245851,2
    		--9481648(+) TAAACC/TGGCCA 2 -- int10--------
    rs1905819591,2
    		--9481661(+) GGTAGA/TCCGTG 2 -- int10--------
    rs800186351,2
    		F,--9481663(+) TAGTCC/TGTGGT 2 -- int11Minor allele frequency- T:0.09WA 118
    rs80649151,2
    		C,F,H,--9481706(+) AATCAG/CTCTGT 2 -- int118Minor allele frequency- C:0.04NS EA NA WA CSA 1227
    rs1816354971,2
    		--9481739(+) TGGCGA/GGTTGA 2 -- int10--------

    HapMap Linkage Disequilibrium report for WDR16 (9479944 - 9546776 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for WDR16: --

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing WDR16
    DNA2.0 Custom Variant and Variant Library Synthesis for WDR16

    Disorders / Diseases
    for WDR16 gene

    (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
    WDR16 for disorders           About GeneDecksing

    OMIM gene information: 609804    OMIM disorders: --

    3 diseases for WDR16:    About MalaCards
    hepatocellular carcinoma    carcinoma    malaria


    Export disorders for WDR16 gene to outside databases

    Publications
    for WDR16 gene

    (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 WDR16 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with WDR16)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. WDRPUH, a novel WD-repeat-containing protein, is highly expressed in human hepatocellular carcinoma and involved in cell proliferation. (PubMed id 15967112)1, 2, 3 Silva F.P.... Furukawa Y. (2005)
    2. 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. (2004)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    4. Toward a confocal subcellular atlas of the human proteome. (PubMed id 18029348)1 Barbe L....Andersson-Svahn H. (2008)
    5. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)
    6. DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage. (PubMed id 16625196)2 Zody M.C.... Nusbaum C. (2006)
    7. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)

    External Searches for WDR16 gene

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  
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    Genome Databases showing WDR16 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 146845 HGNC: 16053 AceView: LOC146845 Ensembl:ENSG00000166596 euGenes: HUgn146845
    ECgene: WDR16 H-InvDB: WDR16

    Other Databases showing WDR16 gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing WDR16 gene

    (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 WDR16 Pharmacogenomics, SNPs, Pathways

    Intellectual Property
    for WDR16 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for WDR16 gene:
    Search GeneIP for patents involving WDR16

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



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