Free for academic non-profit institutions. Other users need a Commercial license

Aliases for PYGO1 Gene

Aliases for PYGO1 Gene

  • Pygopus Family PHD Finger 1 2 3 5
  • Pygopus Homolog 1 (Drosophila) 2
  • Pygopus-Like Protein 1 3
  • Pygopus Homolog 1 3

External Ids for PYGO1 Gene

Previous GeneCards Identifiers for PYGO1 Gene

  • GC15M051396
  • GC15M048883
  • GC15M053417
  • GC15M053554
  • GC15M053625
  • GC15M055831
  • GC15M032662

Summaries for PYGO1 Gene

GeneCards Summary for PYGO1 Gene

PYGO1 (Pygopus Family PHD Finger 1) is a Protein Coding gene. Among its related pathways are Signaling by Wnt and Deactivation of the beta-catenin transactivating complex. An important paralog of this gene is PYGO2.

UniProtKB/Swiss-Prot for PYGO1 Gene

  • Involved in signal transduction through the Wnt pathway.

Additional gene information for PYGO1 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PYGO1 Gene

Genomics for PYGO1 Gene

GeneHancer (GH) Regulatory Elements for PYGO1 Gene

Promoters and enhancers for PYGO1 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
GH15J055587 Promoter/Enhancer 1.7 EPDnew Ensembl ENCODE 650.7 +0.6 555 2.4 MXI1 BACH1 SIN3A RBPJ ZNF335 ZNF664 E2F1 ZFHX2 POLR2A ZBTB48 PYGO1 PRTG GC15M057901
GH15J056037 Enhancer 1.5 FANTOM5 Ensembl ENCODE 21.3 -452.0 -452034 6.5 PKNOX1 CLOCK FOXA2 MLX FEZF1 DMAP1 ZNF2 YY1 ZNF766 ZNF213 ZNF280D RFX7 RSL24D1 TEX9 PYGO1 PRTG MNS1 TCF12 PIGBOS1 RN7SL568P
GH15J055401 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 11.6 +183.4 183388 7.7 HDGF PKNOX1 CLOCK ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 POLR2B C15orf65 CCPG1 RSL24D1 RFX7 NEDD4 PYGO1 DNAAF4 PIGBOS1 PIGB GC15M057886
GH15J055497 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE 11.6 +90.6 90577 1.5 ARID4B SIN3A DMAP1 ZNF2 ZNF48 YY1 GTF3C2 ZNF143 MXD4 ZNF518A DNAAF4 DNAAF4-CCPG1 RFX7 RSL24D1 PYGO1 C15orf65 PIGB LOC100420711
GH15J055627 Enhancer 1 Ensembl ENCODE 12.2 -39.2 -39155 1.6 PKNOX1 SIN3A BRCA1 RFX5 ZSCAN5C RCOR1 FOS SMARCC1 YY2 USF2 PRTG PYGO1 ENSG00000259180
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around PYGO1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the PYGO1 gene promoter:
  • Pax-4a
  • AP-2gamma
  • AP-2beta
  • AP-2alphaA
  • AP-2alpha
  • HFH-3
  • FOXI1
  • Bach1
  • ATF6
  • FOXL1

Genomic Locations for PYGO1 Gene

Genomic Locations for PYGO1 Gene
50,064 bases
Minus strand
50,058 bases
Minus strand

Genomic View for PYGO1 Gene

Genes around PYGO1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PYGO1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PYGO1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PYGO1 Gene

Proteins for PYGO1 Gene

  • Protein details for PYGO1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Pygopus homolog 1
    Protein Accession:
    Secondary Accessions:
    • A7Y2D6

    Protein attributes for PYGO1 Gene

    419 amino acids
    Molecular mass:
    45116 Da
    Quaternary structure:
    • Interacts with BCL9 via The PHD-type zinc finger motiv, and thereby becomes part of the nuclear beta-catenin/TCF complex. Identified in a complex with BCL9L, CDC73, CTNNB1 and PYGO1. Interacts with histone H3 mono-, di- or tri-methylated at Lys4 (H3K4me1, H3K4me2, H3K4me3); the interaction is enhanced by the interaction with BCL9.

    Three dimensional structures from OCA and Proteopedia for PYGO1 Gene

    Alternative splice isoforms for PYGO1 Gene


neXtProt entry for PYGO1 Gene

Post-translational modifications for PYGO1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for PYGO1 Gene

No data available for DME Specific Peptides for PYGO1 Gene

Domains & Families for PYGO1 Gene

Gene Families for PYGO1 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for PYGO1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with PYGO1: view

No data available for UniProtKB/Swiss-Prot for PYGO1 Gene

Function for PYGO1 Gene

Molecular function for PYGO1 Gene

UniProtKB/Swiss-Prot Function:
Involved in signal transduction through the Wnt pathway.

Gene Ontology (GO) - Molecular Function for PYGO1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 18498752
GO:0035064 methylated histone binding IDA 18498752
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with PYGO1: view
genes like me logo Genes that share phenotypes with PYGO1: view

Animal Models for PYGO1 Gene

MGI Knock Outs for PYGO1:

Animal Model Products

miRNA for PYGO1 Gene

miRTarBase miRNAs that target PYGO1

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for PYGO1 Gene

Localization for PYGO1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PYGO1 Gene

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 PYGO1 gene
Compartment Confidence
nucleus 5
cytosol 3

Subcellular locations from the

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

Gene Ontology (GO) - Cellular Components for PYGO1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm TAS --
genes like me logo Genes that share ontologies with PYGO1: view

Pathways & Interactions for PYGO1 Gene

genes like me logo Genes that share pathways with PYGO1: view

SIGNOR curated interactions for PYGO1 Gene

Is activated by:

Gene Ontology (GO) - Biological Process for PYGO1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001822 kidney development IEA --
GO:0002244 hematopoietic progenitor cell differentiation IEA --
GO:0007286 spermatid development IEA --
GO:0007289 spermatid nucleus differentiation IEA --
GO:0009791 post-embryonic development IEA --
genes like me logo Genes that share ontologies with PYGO1: view

Drugs & Compounds for PYGO1 Gene

No Compound Related Data Available

Transcripts for PYGO1 Gene

mRNA/cDNA for PYGO1 Gene

(3) REFSEQ mRNAs :
(3) Additional mRNA sequences :
(7) Selected AceView cDNA sequences:
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for PYGO1 Gene

Pygopus homolog 1 (Drosophila):
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for PYGO1 Gene

No ASD Table

Relevant External Links for PYGO1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for PYGO1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PYGO1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for PYGO1 Gene

This gene is overexpressed in Muscle - Skeletal (x6.1).

Protein differential expression in normal tissues from HIPED for PYGO1 Gene

This gene is overexpressed in Heart (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for PYGO1 Gene

Protein tissue co-expression partners for PYGO1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of PYGO1 Gene:


SOURCE GeneReport for Unigene cluster for PYGO1 Gene:


Evidence on tissue expression from TISSUES for PYGO1 Gene

  • Nervous system(4.2)
  • Heart(4.1)
genes like me logo Genes that share expression patterns with PYGO1: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for PYGO1 Gene

Orthologs for PYGO1 Gene

This gene was present in the common ancestor of animals.

Orthologs for PYGO1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia PYGO1 34 33
  • 99.67 (n)
(Canis familiaris)
Mammalia PYGO1 34 33
  • 93.79 (n)
(Bos Taurus)
Mammalia PYGO1 34 33
  • 93.01 (n)
(Monodelphis domestica)
Mammalia PYGO1 34
  • 86 (a)
(Mus musculus)
Mammalia Pygo1 16 34 33
  • 82.91 (n)
(Rattus norvegicus)
Mammalia Pygo1 33
  • 82.48 (n)
(Ornithorhynchus anatinus)
Mammalia PYGO1 34
  • 74 (a)
(Gallus gallus)
Aves PYGO1 34 33
  • 73.59 (n)
tropical clawed frog
(Silurana tropicalis)
Amphibia pygo1 33
  • 58.24 (n)
(Danio rerio)
Actinopterygii pygo1 34 33
  • 56.38 (n)
fruit fly
(Drosophila melanogaster)
Insecta pygo 34
  • 10 (a)
Species where no ortholog for PYGO1 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)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • 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 (Oryza sativa)
  • 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)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for PYGO1 Gene

Gene Tree for PYGO1 (if available)
Gene Tree for PYGO1 (if available)
Evolutionary constrained regions (ECRs) for PYGO1: view image

Paralogs for PYGO1 Gene

Paralogs for PYGO1 Gene

(1) SIMAP similar genes for PYGO1 Gene using alignment to 2 proteins:

  • A7Y2D6_HUMAN
genes like me logo Genes that share paralogs with PYGO1: view

Variants for PYGO1 Gene

Sequence variations from dbSNP and Humsavar for PYGO1 Gene

SNP ID Clin Chr 15 pos Variation AA Info Type
rs1000039991 -- 55,545,578(-) C/T 3_prime_UTR_variant, intron_variant
rs1000085955 -- 55,583,856(-) C/T intron_variant
rs1000086479 -- 55,583,126(-) A/G intron_variant
rs1000150414 -- 55,582,550(-) T/C intron_variant
rs1000163234 -- 55,565,697(-) GAGTGAG/GAG intron_variant

Structural Variations from Database of Genomic Variants (DGV) for PYGO1 Gene

Variant ID Type Subtype PubMed ID
esv2761899 CNV gain+loss 21179565
esv3569609 CNV gain 25503493
nsv1043789 CNV gain 25217958
nsv472724 CNV novel sequence insertion 20440878
nsv569523 CNV gain 21841781
nsv569539 CNV loss 21841781
nsv569540 CNV gain 21841781
nsv833016 CNV gain 17160897
nsv94482 CNV deletion 16902084
nsv951965 CNV duplication 24416366

Variation tolerance for PYGO1 Gene

Residual Variation Intolerance Score: 38.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.94; 59.66% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PYGO1 Gene

Human Gene Mutation Database (HGMD)
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 PYGO1 Gene

Disorders for PYGO1 Gene

Additional Disease Information for PYGO1

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

No disorders were found for PYGO1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PYGO1 Gene

Publications for PYGO1 Gene

  1. Single nucleotide polymorphisms in Wnt signaling and cell death pathway genes and susceptibility to colorectal cancer. (PMID: 20403915) Frank B … Brenner H (Carcinogenesis 2010) 3 44 58
  2. Decoding of methylated histone H3 tail by the Pygo-BCL9 Wnt signaling complex. (PMID: 18498752) Fiedler M … Bienz M (Molecular cell 2008) 3 4 58
  3. A new nuclear component of the Wnt signalling pathway. (PMID: 11988739) Thompson B … Bienz M (Nature cell biology 2002) 2 3 58
  4. Wnt/wingless signaling requires BCL9/legless-mediated recruitment of pygopus to the nuclear beta-catenin-TCF complex. (PMID: 11955446) Kramps T … Basler K (Cell 2002) 3 4 58
  5. A Y2H-seq approach defines the human protein methyltransferase interactome. (PMID: 23455924) Weimann M … Stelzl U (Nature methods 2013) 3 58

Products for PYGO1 Gene

Sources for PYGO1 Gene

Loading form....