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Aliases for WDR3 Gene

Aliases for WDR3 Gene

  • WD Repeat Domain 3 2 3 5
  • WD Repeat-Containing Protein 3 3
  • DJ776P7.2 (WD Repeat Domain 3) 3
  • UTP12 3
  • DIP2 3

External Ids for WDR3 Gene

Previous GeneCards Identifiers for WDR3 Gene

  • GC01P118934
  • GC01P117313
  • GC01P117622
  • GC01P117822
  • GC01P117818
  • GC01P118184
  • GC01P118472
  • GC01P116328

Summaries for WDR3 Gene

Entrez Gene Summary for WDR3 Gene

  • 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]

GeneCards Summary for WDR3 Gene

WDR3 (WD Repeat Domain 3) is a Protein Coding gene. Among its related pathways are rRNA processing in the nucleus and cytosol and Gene Expression. Gene Ontology (GO) annotations related to this gene include snoRNA binding.

Gene Wiki entry for WDR3 Gene

Additional gene information for WDR3 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for WDR3 Gene

Genomics for WDR3 Gene

GeneHancer (GH) Regulatory Elements for WDR3 Gene

Promoters and enhancers for WDR3 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH01J117928 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 660.9 +0.1 98 2.9 HDGF PKNOX1 FOXA2 MLX ARID4B SIN3A DMAP1 YBX1 YY1 POLR2B WDR3 GDAP2 GC01P117958
GH01J117120 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 49.6 -807.6 -807592 2.9 PKNOX1 SIN3A DMAP1 ZNF2 YY1 POLR2B ZNF143 FOS SP3 CEBPZ TRIM45 WDR3 ATP1A1-AS1 VTCN1 GDAP2 ENSG00000212266 TTF2 PIR35685
GH01J117058 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 36.1 -869.1 -869057 4.4 HDGF PKNOX1 CLOCK SMAD1 ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 TTF2 LOC101929099 WDR3 GDAP2 MAN1A2 ATP1A1-AS1 CD101 MIR942
GH01J117604 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 10.1 -322.7 -322735 4.4 PKNOX1 CLOCK SIN3A ZNF2 YY1 POLR2B ZNF213 FOS KLF13 SP3 LOC100996263 TENT5C PIR50715 GDAP2 ENSG00000271427 ENSG00000212266 WDR3
GH01J117651 Enhancer 1.7 FANTOM5 Ensembl ENCODE dbSUPER 10.6 -275.1 -275121 6 HDGF PKNOX1 ARNT SIN3A IRF4 ZNF766 FOS JUNB ZNF592 SREBF1 WDR3 TENT5C MAN1A2 GDAP2 GC01P117648 GC01M117689 ENSG00000212266
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around WDR3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the WDR3 gene promoter:
  • GATA-1
  • Roaz
  • HEN1
  • AP-1
  • FOXD3
  • HNF-1
  • HNF-1A
  • Pax-3
  • LCR-F1
  • Chx10

Genomic Locations for WDR3 Gene

Genomic Locations for WDR3 Gene
36,823 bases
Plus strand
36,823 bases
Plus strand

Genomic View for WDR3 Gene

Genes around WDR3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
WDR3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for WDR3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for WDR3 Gene

Proteins for WDR3 Gene

  • Protein details for WDR3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    WD repeat-containing protein 3
    Protein Accession:

    Protein attributes for WDR3 Gene

    943 amino acids
    Molecular mass:
    106099 Da
    Quaternary structure:
    No Data Available

neXtProt entry for WDR3 Gene

Post-translational modifications for WDR3 Gene

  • Ubiquitination at posLast=521521 and isoforms=57
  • Modification sites at PhosphoSitePlus

Other Protein References for WDR3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for WDR3 Gene

Domains & Families for WDR3 Gene

Gene Families for WDR3 Gene

Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the WD repeat WDR3/UTP12 family.
  • Belongs to the WD repeat WDR3/UTP12 family.
genes like me logo Genes that share domains with WDR3: view

Function for WDR3 Gene

Molecular function for WDR3 Gene

GENATLAS Biochemistry:
WD repeat domain 3,expressed in hematopoietic cell lines and in non hematopoietic tissues,involved in cell cycle progression,apoptosis gene regulation

Phenotypes From GWAS Catalog for WDR3 Gene

Gene Ontology (GO) - Molecular Function for WDR3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding HDA 22658674
GO:0005515 protein binding IEA --
GO:0030515 snoRNA binding IBA --
genes like me logo Genes that share ontologies with WDR3: view
genes like me logo Genes that share phenotypes with WDR3: view

Animal Models for WDR3 Gene

MGI Knock Outs for WDR3:
  • Wdr3 Wdr3<tm1a(KOMP)Wtsi>

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for WDR3 Gene

Localization for WDR3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for WDR3 Gene

Nucleus, nucleolus.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for WDR3 gene
Compartment Confidence
nucleus 5
extracellular 1
mitochondrion 1
endoplasmic reticulum 1
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoli (4)
  • Nuclear membrane (2)
  • Nucleus (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for WDR3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
GO:0005654 nucleoplasm TAS --
GO:0005730 nucleolus IDA,IEA --
GO:0031965 nuclear membrane IDA --
GO:0032040 small-subunit processome IBA --
genes like me logo Genes that share ontologies with WDR3: view

Pathways & Interactions for WDR3 Gene

genes like me logo Genes that share pathways with WDR3: view

Gene Ontology (GO) - Biological Process for WDR3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006364 rRNA processing TAS --
GO:0030490 maturation of SSU-rRNA IBA --
genes like me logo Genes that share ontologies with WDR3: view

No data available for SIGNOR curated interactions for WDR3 Gene

Drugs & Compounds for WDR3 Gene

No Compound Related Data Available

Transcripts for WDR3 Gene

mRNA/cDNA for WDR3 Gene

(1) REFSEQ mRNAs :
(8) Additional mRNA sequences :
(111) Selected AceView cDNA sequences:
(4) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for WDR3 Gene

WD repeat domain 3:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for WDR3 Gene

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 ^
SP2: - - - -
SP7: - - - -
SP8: - - -
SP9: -

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

Relevant External Links for WDR3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for WDR3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for WDR3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for WDR3 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (26.2) and Urine (12.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for WDR3 Gene

Protein tissue co-expression partners for WDR3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of WDR3 Gene:


SOURCE GeneReport for Unigene cluster for WDR3 Gene:


mRNA Expression by UniProt/SwissProt for WDR3 Gene:

Tissue specificity: Ubiquitous.
genes like me logo Genes that share expression patterns with WDR3: view

No data available for mRNA differential expression in normal tissues , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for WDR3 Gene

Orthologs for WDR3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for WDR3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia WDR3 34 33
  • 99.58 (n)
(Bos Taurus)
Mammalia WDR3 34 33
  • 91.06 (n)
(Canis familiaris)
Mammalia WDR3 34 33
  • 90.07 (n)
(Monodelphis domestica)
Mammalia WDR3 34
  • 87 (a)
(Mus musculus)
Mammalia Wdr3 16 34 33
  • 85.72 (n)
(Rattus norvegicus)
Mammalia Wdr3 33
  • 84.84 (n)
(Ornithorhynchus anatinus)
Mammalia WDR3 34
  • 77 (a)
(Gallus gallus)
Aves WDR3 34 33
  • 75.12 (n)
(Anolis carolinensis)
Reptilia WDR3 34
  • 75 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia wdr3 33
  • 68.67 (n)
MGC76073 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.4834 33
(Danio rerio)
Actinopterygii wdr3 34 33 33
  • 68.66 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP001146 33
  • 51.16 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG8064 34 35 33
  • 50.87 (n)
(Caenorhabditis elegans)
Secernentea F13H8.2 34 35 33
  • 48.93 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes DIP2 36 34 33
  • 51.06 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0D16390g 33
  • 49.6 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AGL196C 33
  • 48.64 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT3G21540 33
  • 50.23 (n)
(Oryza sativa)
Liliopsida Os03g0151700 33
  • 50.31 (n)
Os.9622 33
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPBC3D6.12 33
  • 51.26 (n)
bread mold
(Neurospora crassa)
Ascomycetes NCU03051 33
  • 49.41 (n)
sea squirt
(Ciona savignyi)
Ascidiacea Cin.13 33
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.13 33
Species where no ortholog for WDR3 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for WDR3 Gene

Gene Tree for WDR3 (if available)
Gene Tree for WDR3 (if available)
Evolutionary constrained regions (ECRs) for WDR3: view image

Paralogs for WDR3 Gene

No data available for Paralogs for WDR3 Gene

Variants for WDR3 Gene

Sequence variations from dbSNP and Humsavar for WDR3 Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1000157818 -- 117,933,486(+) A/G coding_sequence_variant, missense_variant
rs1000241479 -- 117,960,230(+) C/G 3_prime_UTR_variant
rs1000371551 -- 117,932,148(+) C/G intron_variant
rs1000572569 -- 117,953,190(+) AAA/AA intron_variant
rs1000724784 -- 117,945,800(+) T/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for WDR3 Gene

Variant ID Type Subtype PubMed ID
esv34191 CNV loss 18971310
nsv528470 CNV loss 19592680
nsv547611 CNV loss 21841781

Variation tolerance for WDR3 Gene

Residual Variation Intolerance Score: 5.35% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.98; 84.07% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for WDR3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for WDR3 Gene

Disorders for WDR3 Gene

Additional Disease Information for WDR3

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for WDR3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for WDR3 Gene

Publications for WDR3 Gene

  1. Cloning and expression analysis of a novel WD repeat gene, WDR3, mapping to 1p12-p13. (PMID: 10395803) Claudio JO … Hawley RG (Genomics 1999) 2 3 4 58
  2. WDR3 gene haplotype is associated with thyroid cancer risk in a Spanish population. (PMID: 20578902) Akdi A … Velázquez A (Thyroid : official journal of the American Thyroid Association 2010) 3 44 58
  3. Functional proteomic analysis of human nucleolus. (PMID: 12429849) Scherl A … Diaz JJ (Molecular biology of the cell 2002) 3 4 58
  4. Association studies of WD repeat domain 3 and chitobiosyldiphosphodolichol beta-mannosyltransferase genes with schizophrenia in a Japanese population. (PMID: 29309433) Kobayashi M … Nishikawa T (PloS one 2018) 3 58
  5. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58

Products for WDR3 Gene

Sources for WDR3 Gene

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