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PYGO2 pygopus family PHD finger 2 [ Homo sapiens (human) ]

Gene ID: 90780, updated on 8-Oct-2019

Summary

Official Symbol
PYGO2provided by HGNC
Official Full Name
pygopus family PHD finger 2provided by HGNC
Primary source
HGNC:HGNC:30257
See related
Ensembl:ENSG00000163348 MIM:606903
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
1190004M21Rik
Expression
Ubiquitous expression in thyroid (RPKM 16.3), ovary (RPKM 15.1) and 25 other tissues See more
Orthologs

Genomic context

See PYGO2 in Genome Data Viewer
Location:
1q21.3
Exon count:
3
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (154957026..154961782, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (154929502..154934258, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene phosphomevalonate kinase Neighboring gene PBX homeobox interacting protein 1 Neighboring gene uncharacterized LOC101928120 Neighboring gene SHC adaptor protein 1 Neighboring gene microRNA 4258 Neighboring gene CDC28 protein kinase regulatory subunit 1B

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Identification of 23 new prostate cancer susceptibility loci using the iCOGS custom genotyping array.
NHGRI GWA Catalog

Pathways from BioSystems

  • Deactivation of the beta-catenin transactivating complex, organism-specific biosystem (from REACTOME)
    Deactivation of the beta-catenin transactivating complex, organism-specific biosystemThe mechanisms involved in downregulation of TCF-dependent transcription are not yet very well understood. beta-catenin is known to recruit a number of transcriptional repressors, including Reptin, S...
  • Formation of the beta-catenin:TCF transactivating complex, organism-specific biosystem (from REACTOME)
    Formation of the beta-catenin:TCF transactivating complex, organism-specific biosystemOnce in the nucleus, beta-catenin is recruited to WNT target genes through interaction with TCF/LEF transcription factors. This family, which consists of TCF7 (also known as TCF1), TCF7L1 (also known...
  • Signal Transduction, organism-specific biosystem (from REACTOME)
    Signal Transduction, organism-specific biosystemSignal transduction is a process in which extracellular signals elicit changes in cell state and activity. Transmembrane receptors sense changes in the cellular environment by binding ligands, such a...
  • Signaling by Wnt, organism-specific biosystem (from REACTOME)
    Signaling by Wnt, organism-specific biosystemWNT signaling pathways control a wide range of developmental and adult process in metozoans including cell proliferation, cell fate decisions, cell polarity and stem cell maintenance (reviewed in Sai...
  • TCF dependent signaling in response to WNT, organism-specific biosystem (from REACTOME)
    TCF dependent signaling in response to WNT, organism-specific biosystem19 WNT ligands and 10 FZD receptors have been identified in human cells; interactions amongst these ligands and receptors vary in a developmental and tissue-specific manner and lead to activation of ...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Potential readthrough

Included gene: PBXIP1

Homology

Clone Names

  • FLJ33226

Gene Ontology Provided by GOA

Function Evidence Code Pubs
chromatin binding IEA
Inferred from Electronic Annotation
more info
 
histone acetyltransferase regulator activity IEA
Inferred from Electronic Annotation
more info
 
histone binding IEA
Inferred from Electronic Annotation
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
beta-catenin-TCF complex assembly TAS
Traceable Author Statement
more info
 
brain development IEA
Inferred from Electronic Annotation
more info
 
canonical Wnt signaling pathway IEA
Inferred from Electronic Annotation
more info
 
developmental growth IEA
Inferred from Electronic Annotation
more info
 
in utero embryonic development IEA
Inferred from Electronic Annotation
more info
 
kidney development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
lens development in camera-type eye IEA
Inferred from Electronic Annotation
more info
 
mammary gland development IEA
Inferred from Electronic Annotation
more info
 
positive regulation of chromatin binding IEA
Inferred from Electronic Annotation
more info
 
post-embryonic development IEA
Inferred from Electronic Annotation
more info
 
regulation of histone H3-K4 methylation IEA
Inferred from Electronic Annotation
more info
 
regulation of histone acetylation IEA
Inferred from Electronic Annotation
more info
 
regulation of mammary gland epithelial cell proliferation IEA
Inferred from Electronic Annotation
more info
 
roof of mouth development IEA
Inferred from Electronic Annotation
more info
 
spermatid nucleus differentiation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
beta-catenin-TCF complex IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
pygopus homolog 2
Names
pygopus 2

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_138300.4NP_612157.1  pygopus homolog 2

    See identical proteins and their annotated locations for NP_612157.1

    Status: VALIDATED

    Source sequence(s)
    BC006132, CN260857
    Consensus CDS
    CCDS1075.1
    UniProtKB/Swiss-Prot
    Q9BRQ0
    UniProtKB/TrEMBL
    Q5T170
    Related
    ENSP00000357442.2, ENST00000368457.3
    Conserved Domains (1) summary
    cd15636
    Location:329382
    PHD_PYGO2; PHD finger found in pygopus homolog 2 (PYGO2)

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20190905

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    154957026..154961782 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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