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Aliases for WDR53 Gene

Aliases for WDR53 Gene

  • WD Repeat Domain 53 2 3 5

External Ids for WDR53 Gene

Previous GeneCards Identifiers for WDR53 Gene

  • GC03M197770
  • GC03M196281
  • GC03M193578

Summaries for WDR53 Gene

Entrez Gene Summary for WDR53 Gene

  • This gene encodes a protein containing WD domains. The function of this gene is unknown. [provided by RefSeq, Jul 2008]

GeneCards Summary for WDR53 Gene

WDR53 (WD Repeat Domain 53) is a Protein Coding gene.

Additional gene information for WDR53 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for WDR53 Gene

Genomics for WDR53 Gene

GeneHancer (GH) Regulatory Elements for WDR53 Gene

Promoters and enhancers for WDR53 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH03I196567 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 550.8 -0.1 -115 2.6 HDGF SMAD1 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 POLR2B CBX5 FBXO45 WDR53 SDHAP2 SDHAP1 RNF168 LINC00969 MIR570 CEP19 LINC01063 NCBP2
GH03I196285 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 21 +281.4 281405 3.2 HDGF PKNOX1 FOXA2 ARNT ZFP64 ARID4B SIN3A DMAP1 ZNF2 ZBTB7B PCYT1A TM4SF19 WDR53 RNF168 ACAP2 ENSG00000260261 NCBP2 SLC51A ENSG00000231443 ENSG00000228028
GH03I196710 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 21 -143.6 -143552 3 HDGF PKNOX1 FOXA2 ARID4B SIN3A DMAP1 ZNF2 ZNF766 ZNF207 ZNF143 CEP19 PIGX WDR53 SDHAP1 RNF168 UBXN7 ENSG00000249626 RNU6-646P
GH03I196527 Promoter/Enhancer 2 FANTOM5 Ensembl ENCODE dbSUPER 11.6 +40.1 40131 1.8 PKNOX1 ATF1 ARNT SIN3A YY1 GTF3C2 TCF12 ZNF766 GATA2 ZNF143 ENSG00000213358 FBXO45 WDR53 CEP19 NCBP2 NCBP2-AS1 RNF168 MELTF-AS1 TM4SF19 SMCO1
GH03I196511 Enhancer 1.2 ENCODE dbSUPER 14.8 +56.3 56264 1.5 SMAD1 ATF1 ARNT NCOA2 ZNF280A TCF12 ZNF766 GATA2 ZNF416 ATF7 UBXN7 RNF168 WDR53 SDHAP1 SDHAP2 ENSG00000230732 LINC00969 SMCO1 LOC105374307
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around WDR53 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the WDR53 gene promoter:

Genomic Locations for WDR53 Gene

Genomic Locations for WDR53 Gene
chr3:196,554,177-196,568,674
(GRCh38/hg38)
Size:
14,498 bases
Orientation:
Minus strand
chr3:196,281,056-196,295,545
(GRCh37/hg19)

Genomic View for WDR53 Gene

Genes around WDR53 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
WDR53 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for WDR53 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for WDR53 Gene

Proteins for WDR53 Gene

  • Protein details for WDR53 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q7Z5U6-WDR53_HUMAN
    Recommended name:
    WD repeat-containing protein 53
    Protein Accession:
    Q7Z5U6
    Secondary Accessions:
    • A0MNP1

    Protein attributes for WDR53 Gene

    Size:
    358 amino acids
    Molecular mass:
    38989 Da
    Quaternary structure:
    No Data Available

neXtProt entry for WDR53 Gene

Post-translational modifications for WDR53 Gene

No Post-translational modifications

No data available for DME Specific Peptides for WDR53 Gene

Domains & Families for WDR53 Gene

Gene Families for WDR53 Gene

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

Graphical View of Domain Structure for InterPro Entry

Q7Z5U6

UniProtKB/Swiss-Prot:

WDR53_HUMAN :
  • Belongs to the WD repeat WDR53 family.
Family:
  • Belongs to the WD repeat WDR53 family.
genes like me logo Genes that share domains with WDR53: view

Function for WDR53 Gene

Phenotypes From GWAS Catalog for WDR53 Gene

genes like me logo Genes that share phenotypes with WDR53: view

Animal Model Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for WDR53 Gene

Localization for WDR53 Gene

Subcellular locations from

COMPARTMENTS
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 WDR53 gene
Compartment Confidence
cytosol 3
plasma membrane 2
nucleus 2
extracellular 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Plasma membrane (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for WDR53 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IBA --
genes like me logo Genes that share ontologies with WDR53: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for WDR53 Gene

Pathways & Interactions for WDR53 Gene

SuperPathways for WDR53 Gene

No Data Available

Gene Ontology (GO) - Biological Process for WDR53 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for WDR53 Gene

Drugs & Compounds for WDR53 Gene

No Compound Related Data Available

Transcripts for WDR53 Gene

Unigene Clusters for WDR53 Gene

WD repeat domain 53:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for WDR53 Gene

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2a · 2b · 2c ^ 3a · 3b · 3c · 3d ^ 4a · 4b · 4c
SP1: - - - - - - -
SP2: -
SP3: -
SP4:
SP5: - - - - - - - -
SP6: - -

Relevant External Links for WDR53 Gene

GeneLoc Exon Structure for
WDR53
ECgene alternative splicing isoforms for
WDR53

Expression for WDR53 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for WDR53 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for WDR53 Gene

This gene is overexpressed in Testis (x6.6).

Protein differential expression in normal tissues from HIPED for WDR53 Gene

This gene is overexpressed in Testis (64.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for WDR53 Gene



Protein tissue co-expression partners for WDR53 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of WDR53 Gene:

WDR53

SOURCE GeneReport for Unigene cluster for WDR53 Gene:

Hs.385865

Evidence on tissue expression from TISSUES for WDR53 Gene

  • Nervous system(4.2)
  • Eye(4)
  • Gall bladder(2)
genes like me logo Genes that share expression patterns with WDR53: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for WDR53 Gene

Orthologs for WDR53 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for WDR53 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia WDR53 33 34
  • 99.81 (n)
dog
(Canis familiaris)
Mammalia WDR53 33 34
  • 90.41 (n)
cow
(Bos Taurus)
Mammalia WDR53 33 34
  • 89.11 (n)
mouse
(Mus musculus)
Mammalia Wdr53 33 16 34
  • 84.17 (n)
rat
(Rattus norvegicus)
Mammalia Wdr53 33
  • 82.96 (n)
oppossum
(Monodelphis domestica)
Mammalia WDR53 34
  • 77 (a)
OneToOne
chicken
(Gallus gallus)
Aves WDR53 33 34
  • 63.74 (n)
lizard
(Anolis carolinensis)
Reptilia WDR53 34
  • 64 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia wdr53 33
  • 62.97 (n)
zebrafish
(Danio rerio)
Actinopterygii LOC799626 33
  • 54.62 (n)
WDR53 34
  • 47 (a)
OneToOne
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G45760 33
  • 45.46 (n)
rice
(Oryza sativa)
Liliopsida Os01g0205100 33
  • 44.41 (n)
Species where no ortholog for WDR53 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • 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)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for WDR53 Gene

ENSEMBL:
Gene Tree for WDR53 (if available)
TreeFam:
Gene Tree for WDR53 (if available)

Paralogs for WDR53 Gene

Pseudogenes.org Pseudogenes for WDR53 Gene

genes like me logo Genes that share paralogs with WDR53: view

No data available for Paralogs for WDR53 Gene

Variants for WDR53 Gene

Sequence variations from dbSNP and Humsavar for WDR53 Gene

SNP ID Clin Chr 03 pos Variation AA Info Type
VAR_035890 A breast cancer sample p.Ser60Cys
rs1000212234 -- 196,563,754(-) T/G intron_variant
rs1000301780 -- 196,557,417(-) G/T intron_variant
rs1000339568 -- 196,566,668(-) C/T intron_variant
rs1000662036 -- 196,558,478(-) A/G intron_variant

Structural Variations from Database of Genomic Variants (DGV) for WDR53 Gene

Variant ID Type Subtype PubMed ID
nsv829828 CNV loss 17160897
nsv1139198 CNV deletion 24896259
nsv1014692 CNV gain 25217958
nsv1003066 CNV gain 25217958

Variation tolerance for WDR53 Gene

Residual Variation Intolerance Score: 74% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.96; 36.37% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for WDR53 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
WDR53

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for WDR53 Gene

Disorders for WDR53 Gene

Additional Disease Information for WDR53

No disorders were found for WDR53 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for WDR53 Gene

Publications for WDR53 Gene

  1. CUL4-DDB1 ubiquitin ligase interacts with multiple WD40-repeat proteins and regulates histone methylation. (PMID: 17041588) Higa LA … Zhang H (Nature cell biology 2006) 3 4 58
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL … Mammalian Gene Collection Program Team (Proceedings of the National Academy of Sciences of the United States of America 2002) 2 3 58
  4. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  5. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin EL … Gygi SP (Cell 2015) 3 58

Products for WDR53 Gene

Sources for WDR53 Gene

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