Pygo1 pygopus family PHD finger 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Pygo1provided by RGD
Official Full Name: pygopus family PHD finger 1provided by RGD
Primary source: RGD:1594620
See related: EnsemblRapid:ENSRNOG00000066086 AllianceGenome:RGD:1594620
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable methylated histone binding activity. Predicted to be involved in canonical Wnt signaling pathway; kidney development; and spermatid nucleus differentiation. Predicted to act upstream of or within several processes, including hematopoietic progenitor cell differentiation; positive regulation of transcription by RNA polymerase II; and spermatid development. Predicted to be located in nucleus. Orthologous to human PYGO1 (pygopus family PHD finger 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Lung (RPKM 88.2), Heart (RPKM 47.6) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 8q24

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	8	NC_086026.1 (82546866..82565526)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	8	NC_051343.1 (73666210..73684873)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	8	NC_005107.4 (79607013..79625188)

Chromosome 8 - NC_086026.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Markers

BE112214 (e-PCR)
- UniSTS:246077

KS207 (e-PCR)
- UniSTS:253300

BE119608 (e-PCR)
- UniSTS:249230

Pygo1 (e-PCR), detects polymorphism
- UniSTS:545978

RH131439 (e-PCR)
- UniSTS:214722

RH130416 (e-PCR)
- UniSTS:213700

AI407365 (e-PCR)
- UniSTS:250058

BE097562 (e-PCR)
- UniSTS:244692

RH135065 (e-PCR)
- UniSTS:218342

RH138058 (e-PCR)
- UniSTS:220145

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables methylated histone binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within hematopoietic progenitor cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in kidney development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within kidney development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein localization to nucleus	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within spermatid development	ISO Inferred from Sequence Orthology more info
involved_in spermatid nucleus differentiation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within spermatid nucleus differentiation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: pygopus homolog 1

Names: pygopus 1

NCBI Reference Sequences (RefSeq)

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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)

NM_001191117.2 → NP_001178046.1 pygopus homolog 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000008

UniProtKB/TrEMBL

A0A8I6AA06

Related

ENSRNOP00000090647.1, ENSRNOT00000102913.2

Conserved Domains (1) summary

cd15635
Location:339 → 395

PHD_PYGO1; PHD finger found in pygopus homolog 1 (PYGO1)