Pygo2 MGI Mouse Gene Detail - MGI:1916161

Symbol

Pygo2
Name

pygopus 2
Synonyms

1190004M21Rik, mpygo2

Feature Type

protein coding gene
IDs

MGI:1916161
NCBI Gene: 68911
Alliance

gene page
Transcription Start Sites

7 TSS

Sequence Map

Chr3:89337521-89342435 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 3, 39.12 cM
Mapping Data

2 experiments

SNPs within 2kb

29 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1916161	protein coding gene	Chr3:89337521-89342438 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0027440	protein coding gene	Chr3:89646153-89651067 (+)
A/J	MGP_AJ_G0027404	protein coding gene	Chr3:86679069-86683983 (+)
AKR/J	MGP_AKRJ_G0027368	protein coding gene	Chr3:88777988-88782902 (+)
BALB/cJ	MGP_BALBcJ_G0027413	protein coding gene	Chr3:86647755-86652669 (+)
C3H/HeJ	MGP_C3HHeJ_G0027155	protein coding gene	Chr3:88980340-88985254 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0027859	protein coding gene	Chr3:93030827-93035741 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0025211	protein coding gene	Chr3:82162721-82167658 (+)
CAST/EiJ	MGP_CASTEiJ_G0026601	protein coding gene	Chr3:89337117-89342036 (+)
CBA/J	MGP_CBAJ_G0027129	protein coding gene	Chr3:96224676-96229590 (+)
DBA/2J	MGP_DBA2J_G0027267	protein coding gene	Chr3:86057085-86061999 (+)
FVB/NJ	MGP_FVBNJ_G0027235	protein coding gene	Chr3:84397721-84402635 (+)
LP/J	MGP_LPJ_G0027376	protein coding gene	Chr3:90725629-90730543 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0027255	protein coding gene	Chr3:102430560-102435474 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0027918	protein coding gene	Chr3:88532866-88537780 (+)
PWK/PhJ	MGP_PWKPhJ_G0026335	protein coding gene	Chr3:85934840-85939745 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0026154	protein coding gene	Chr3:87711397-87716280 (+)
WSB/EiJ	MGP_WSBEiJ_G0026683	protein coding gene	Chr3:88929684-88934598 (+)

Human Ortholog

PYGO2, pygopus family PHD finger 2

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

PYGO2, pygopus family PHD finger 2
Synonyms

1190004M21Rik
Links

HGNC:30257

NCBI Gene ID: 90780

neXtProt AC: NX_Q9BRQ0

UniProt: Q9BRQ0
Chr Location

1q21.3; chr1:154957026-154963853 (-) GRCh38

MGI Vertebrate Homology

Pygo2 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: PYGO2
Gene Tree

Pygo2

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References

1 with disease annotations

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Phenotype Summary

52 phenotypes from 6 alleles in 11 genetic backgrounds
15 phenotypes from multigenic genotypes
1 images
30 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

18
Chemically induced (other)

1
Gene trapped

4
Radiation induced

1
Targeted

12
Genomic Mutations

2 involving Pygo2
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

24 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a null allele exhibit neonatal lethality, have small or absent lens, abnormal optic cup morphology, and impaired mammary gland epithelium proliferation. Mice homozygous for a knock-in allele exhibit normal development and fertility.

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All GO Annotations

25
GO References

6

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	non-membrane-bounded organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

980
Tissues

156
cDNA Data

12
Literature Summary

14

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase pygo2

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All Sequences

83
RefSeq

14
UniProt

3
CCDS

CCDS38494.1, CCDS79952.1

Ensembl

ENSMUSG00000047824 (Evidence)
NCBI Gene

68911

			Length	Strain/Species	Flank
genomic	ENSMUSG00000047824	Ensembl Gene Model \| MGI Sequence Detail	4915	C57BL/6J	± kb
transcript	ENSMUST00000060061	Ensembl \| MGI Sequence Detail	3198	Not Applicable
polypeptide	ENSMUSP00000053672	Ensembl \| MGI Sequence Detail	405	Not Applicable

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UniProt

3 Sequences
InterPro Domains

IPR011011 Zinc finger, FYVE/PHD-type

IPR019787 Zinc finger, PHD-finger

IPR001965 Zinc finger, PHD-type

IPR019786 Zinc finger, PHD-type, conserved site

IPR013083 Zinc finger, RING/FYVE/PHD-type

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All nucleic 16

cDNA 13

Primer pair 3

Microarray probesets 2

Summaries

All 59

Developmental Gene Expression 14

Diseases 1

Gene Ontology 6

Phenotypes 30
Earliest

J:65060 Kawai J, et al., Functional annotation of a full-length mouse cDNA collection. Nature. 2001 Feb 8;409(6821):685-90
Latest

J:338895 Zhu Y, et al., Targeting the chromatin effector Pygo2 promotes cytotoxic T cell responses and overcomes immunotherapy resistance in prostate cancer. Sci Immunol. 2023 Mar 17;8(81):eade4656

TSS for Pygo2:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr30110	Chr3:89336896-89336919 (+)	-613 bp
Tssr30111	Chr3:89337580-89337596 (+)	67 bp
Tssr30112	Chr3:89337702-89337807 (+)	234 bp
Tssr30113	Chr3:89337843-89337850 (+)	326 bp
Tssr30114	Chr3:89337888-89337904 (+)	375 bp
Tssr30115	Chr3:89339777-89339802 (+)	2,269 bp
Tssr30116	Chr3:89340206-89340240 (+)	2,702 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 04/16/2024 MGI 6.23