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Aliases for WDR59 Gene

Aliases for WDR59 Gene

  • WD Repeat Domain 59 2 3 5
  • WD Repeat-Containing Protein 59 3
  • CDw12 Antigen 3
  • KIAA1923 4
  • P90-120 3
  • CDW12 3
  • FP977 3

External Ids for WDR59 Gene

Previous GeneCards Identifiers for WDR59 Gene

  • GC16M073465
  • GC16M060657

Summaries for WDR59 Gene

GeneCards Summary for WDR59 Gene

WDR59 (WD Repeat Domain 59) is a Protein Coding gene. Among its related pathways are mTOR signaling pathway (KEGG).

UniProtKB/Swiss-Prot for WDR59 Gene

  • As a component of the GATOR subcomplex GATOR2, functions within the amino acid-sensing branch of the TORC1 signaling pathway. Indirectly activates mTORC1 and the TORC1 signaling pathway through the inhibition of the GATOR1 subcomplex (PubMed:23723238). It is negatively regulated by the upstream amino acid sensors SESN2 and GATSL3 (PubMed:25457612, PubMed:27487210).

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for WDR59 Gene

Genomics for WDR59 Gene

Regulatory Elements for WDR59 Gene

Enhancers for WDR59 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH16F074991 1.1 Ensembl ENCODE 6.3 +7.9 7896 2.2 HDGF ATF1 MLX ZFP64 ARID4B YY1 GATA2 SP5 MXD4 PPARG WDR59 ZNRF1 GC16P074871
GH16F074997 0.5 FANTOM5 ENCODE 6.1 -2.0 -1993 8.5 PKNOX1 ZFP64 ARID4B SIN3A DMAP1 ZNF2 SLC30A9 CBX5 ZNF143 SP3 ZNRF1 WDR59 ENSG00000261783 ZFP1 FA2H BCAR1 ENSG00000247033
GH16F075024 1.1 Ensembl ENCODE 5.6 -27.2 -27226 6.8 PKNOX1 ATF1 ARID4B SIN3A YY1 CBX5 FOS NCOA1 ZHX2 ZNF592 ZNRF1 WDR59 ENSG00000247033
GH16F075058 0.6 Ensembl ENCODE 5.6 -64.9 -64918 13.5 HDGF PKNOX1 ARID4B SIN3A DMAP1 YY1 ZNF143 SP5 MXD4 ZHX2 ZNRF1 WDR59 ENSG00000247033
GH16F075010 1.5 FANTOM5 Ensembl ENCODE 5.5 -11.8 -11756 3.6 TBP PKNOX1 TBL1XR1 WRNIP1 INSM2 BMI1 ZNF121 ZNF366 FOS CREM ZNRF1 WDR59 MLKL TMEM170A ENSG00000247033
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around WDR59 on UCSC Golden Path with GeneCards custom track

Promoters for WDR59 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000510060 73 3401 ZFP64 ARID4B SIN3A DMAP1 ZNF2 SLC30A9 ZNF143 SP3 SP5 MXD4

Genomic Location for WDR59 Gene

Chromosome:
16
Start:
74,871,367 bp from pter
End:
75,000,173 bp from pter
Size:
128,807 bases
Orientation:
Minus strand

Genomic View for WDR59 Gene

Genes around WDR59 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
WDR59 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for WDR59 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for WDR59 Gene

Proteins for WDR59 Gene

  • Protein details for WDR59 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6PJI9-WDR59_HUMAN
    Recommended name:
    WD repeat-containing protein 59
    Protein Accession:
    Q6PJI9
    Secondary Accessions:
    • B3KRC3
    • Q71RE7
    • Q96PW5
    • Q9BSW6
    • Q9HA43

    Protein attributes for WDR59 Gene

    Size:
    974 amino acids
    Molecular mass:
    109793 Da
    Quaternary structure:
    • Interacts with DDB1-CUL4A/B E3 ligase complexes (By similarity). Within the GATOR complex, component of the GATOR2 subcomplex, made of MIOS, SEC13, SEH1L, WDR24 and WDR59. The GATOR complex strongly interacts with RRAGA/RRAGC and RRAGB/RRAGC heterodimers. The GATOR2 complex interacts with GATSL2 and GATSL3; the interaction is negatively regulated by arginine (PubMed:26972053). The GATOR2 complex interacts with SESN1, SESN2 and SESN3; the interaction is negatively regulated by amino acids (PubMed:25263562, PubMed:25457612).
    SequenceCaution:
    • Sequence=BAB67816.1; Type=Frameshift; Positions=157; Evidence={ECO:0000305};

    Alternative splice isoforms for WDR59 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for WDR59 Gene

Post-translational modifications for WDR59 Gene

  • Ubiquitination at Lys 588 and Lys 864
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for WDR59 Gene

Domains & Families for WDR59 Gene

Gene Families for WDR59 Gene

Suggested Antigen Peptide Sequences for WDR59 Gene

Graphical View of Domain Structure for InterPro Entry

Q6PJI9

UniProtKB/Swiss-Prot:

WDR59_HUMAN :
  • Contains 1 RWD domain.
  • Belongs to the WD repeat WDR59 family.
  • Contains 8 WD repeats.
Domain:
  • Contains 1 RWD domain.
Family:
  • Belongs to the WD repeat WDR59 family.
Similarity:
  • Contains 8 WD repeats.
genes like me logo Genes that share domains with WDR59: view

Function for WDR59 Gene

Molecular function for WDR59 Gene

UniProtKB/Swiss-Prot Function:
As a component of the GATOR subcomplex GATOR2, functions within the amino acid-sensing branch of the TORC1 signaling pathway. Indirectly activates mTORC1 and the TORC1 signaling pathway through the inhibition of the GATOR1 subcomplex (PubMed:23723238). It is negatively regulated by the upstream amino acid sensors SESN2 and GATSL3 (PubMed:25457612, PubMed:27487210).

Gene Ontology (GO) - Molecular Function for WDR59 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
GO:0005515 protein binding IPI 26972053
genes like me logo Genes that share ontologies with WDR59: view
genes like me logo Genes that share phenotypes with WDR59: view

Animal Models for WDR59 Gene

MGI Knock Outs for WDR59:

Animal Model Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for WDR59

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for WDR59 Gene

Localization for WDR59 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for WDR59 Gene COMPARTMENTS Subcellular localization image for WDR59 gene
Compartment Confidence
cytosol 3
nucleus 2

Gene Ontology (GO) - Cellular Components for WDR59 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005575 cellular_component ND --
GO:0061700 GATOR2 complex IDA 23723238
genes like me logo Genes that share ontologies with WDR59: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for WDR59 Gene

Pathways & Interactions for WDR59 Gene

SuperPathways for WDR59 Gene

SuperPathway Contained pathways
1 mTOR signaling pathway (KEGG)
genes like me logo Genes that share pathways with WDR59: view

Pathways by source for WDR59 Gene

1 KEGG pathway for WDR59 Gene

Gene Ontology (GO) - Biological Process for WDR59 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008150 biological_process ND --
GO:0032008 positive regulation of TOR signaling IMP 23723238
GO:0034198 cellular response to amino acid starvation IMP 23723238
genes like me logo Genes that share ontologies with WDR59: view

No data available for SIGNOR curated interactions for WDR59 Gene

Transcripts for WDR59 Gene

Unigene Clusters for WDR59 Gene

WD repeat domain 59:
Representative Sequences:

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for WDR59

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for WDR59 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14a · 14b ^ 15a · 15b ^ 16a · 16b ^ 17 ^ 18a · 18b ^ 19a · 19b ^
SP1: - - - - -
SP2: - - - - - -
SP3:
SP4: -
SP5: -
SP6: - -
SP7: -
SP8:
SP9:
SP10: -
SP11: -

ExUns: 20a · 20b · 20c ^ 21a · 21b · 21c ^ 22 ^ 23a · 23b ^ 24a · 24b ^ 25 ^ 26 ^ 27 ^ 28
SP1: - - - -
SP2:
SP3: - -
SP4:
SP5:
SP6:
SP7: - - -
SP8: -
SP9: -
SP10:
SP11:

Relevant External Links for WDR59 Gene

GeneLoc Exon Structure for
WDR59
ECgene alternative splicing isoforms for
WDR59

Expression for WDR59 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for WDR59 Gene

Protein differential expression in normal tissues from HIPED for WDR59 Gene

This gene is overexpressed in Frontal cortex (22.9), Spinal cord (13.7), and Bone marrow mesenchymal stem cell (8.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for WDR59 Gene



Protein tissue co-expression partners for WDR59 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of WDR59 Gene:

WDR59

SOURCE GeneReport for Unigene cluster for WDR59 Gene:

Hs.280951
genes like me logo Genes that share expression patterns with WDR59: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for WDR59 Gene

Orthologs for WDR59 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for WDR59 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia WDR59 34 35
  • 99.21 (n)
oppossum
(Monodelphis domestica)
Mammalia WDR59 35
  • 93 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia WDR59 35
  • 92 (a)
OneToOne
dog
(Canis familiaris)
Mammalia WDR59 34 35
  • 90.14 (n)
cow
(Bos Taurus)
Mammalia WDR59 34 35
  • 89.49 (n)
rat
(Rattus norvegicus)
Mammalia Wdr59 34
  • 88.78 (n)
mouse
(Mus musculus)
Mammalia Wdr59 34 16 35
  • 88.36 (n)
chicken
(Gallus gallus)
Aves WDR59 34 35
  • 80.4 (n)
lizard
(Anolis carolinensis)
Reptilia WDR59 35
  • 85 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia wdr59 34
  • 73.23 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.5067 34
zebrafish
(Danio rerio)
Actinopterygii wdr59 35
  • 72 (a)
OneToOne
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.12997 34
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP008331 34
  • 48.53 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG4705 34 35
  • 47.03 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes MTC5 34 35 37
  • 42.52 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F19734g 34
  • 42.17 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AGR067W 34
  • 41.45 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPAC11E3.05 34
  • 42.29 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 39 (a)
OneToOne
Species where no ortholog for WDR59 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)
  • bread mold (Neurospora crassa)
  • 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)
  • rice (Oryza sativa)
  • 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)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for WDR59 Gene

ENSEMBL:
Gene Tree for WDR59 (if available)
TreeFam:
Gene Tree for WDR59 (if available)

Paralogs for WDR59 Gene

Pseudogenes.org Pseudogenes for WDR59 Gene

genes like me logo Genes that share paralogs with WDR59: view

No data available for Paralogs for WDR59 Gene

Variants for WDR59 Gene

Sequence variations from dbSNP and Humsavar for WDR59 Gene

SNP ID Clin Chr 16 pos Sequence Context AA Info Type
rs10220982 -- 74,953,383(+) cacga(C/G)aattc intron-variant
rs10221093 -- 74,952,101(+) TGAGG(C/T)GTGAG intron-variant
rs10221183 -- 74,952,070(+) cctca(A/G)agtct intron-variant
rs10451155 -- 74,963,575(+) tgtac(A/G)ctggg intron-variant
rs1051432 -- 74,873,752(+) TACCA(C/G)CTTCT nc-transcript-variant, utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for WDR59 Gene

Variant ID Type Subtype PubMed ID
dgv3019n100 CNV loss 25217958
esv2666064 CNV deletion 23128226
esv3639077 CNV loss 21293372
esv3639078 CNV loss 21293372
nsv472419 CNV novel sequence insertion 20440878
nsv510420 OTHER sequence alteration 20534489
nsv526213 CNV loss 19592680
nsv572977 CNV loss 21841781
nsv572978 CNV loss 21841781
nsv833280 CNV loss 17160897
nsv978001 CNV duplication 23825009

Variation tolerance for WDR59 Gene

Residual Variation Intolerance Score: 6.05% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.24; 62.35% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for WDR59 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
WDR59

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for WDR59 Gene

Disorders for WDR59 Gene

Relevant External Links for WDR59

Genetic Association Database (GAD)
WDR59
Human Genome Epidemiology (HuGE) Navigator
WDR59
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
WDR59

No disorders were found for WDR59 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for WDR59 Gene

Publications for WDR59 Gene

  1. Prediction of the coding sequences of unidentified human genes. XXI. The complete sequences of 60 new cDNA clones from brain which code for large proteins. (PMID: 11572484) Nagase T. … Ohara O. (DNA Res. 2001) 2 3 4 64
  2. The CASTOR proteins are arginine sensors for the mTORC1 pathway. (PMID: 26972053) Chantranupong L. … Sabatini D.M. (Cell 2016) 3 4 64
  3. A Tumor suppressor complex with GAP activity for the Rag GTPases that signal amino acid sufficiency to mTORC1. (PMID: 23723238) Bar-Peled L. … Sabatini D.M. (Science 2013) 3 4 64
  4. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 46 64
  5. Fine mapping and association studies of a high-density lipoprotein cholesterol linkage region on chromosome 16 in French-Canadian subjects. (PMID: 19844255) Dastani Z. … Genest J. (Eur. J. Hum. Genet. 2010) 3 46 64

Products for WDR59 Gene

Sources for WDR59 Gene

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