Prdm8 PR domain containing 8 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Prdm8provided by MGI
Official Full Name: PR domain containing 8provided by MGI
Primary source: MGI:MGI:1924880
See related: Ensembl:ENSMUSG00000035456 AllianceGenome:MGI:1924880
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: PFM5; 4930565F05Rik
Summary: Enables chromatin binding activity; histone H3K9 methyltransferase activity; and transcription corepressor activity. Acts upstream of or within corpus callosum morphogenesis; corticospinal tract morphogenesis; and negative regulation of DNA-templated transcription. Located in nucleus. Is expressed in several structures, including central nervous system; dorsal root ganglion; lung; retina; and testis. Human ortholog(s) of this gene implicated in progressive myoclonus epilepsy 10. Orthologous to human PRDM8 (PR/SET domain 8). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in testis adult (RPKM 13.3), CNS E18 (RPKM 8.4) and 9 other tissues See more
Orthologs: human all
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Genomic context

Location:: 5 E3; 5 47.77 cM

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	5	NC_000071.7 (98315241..98335313)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	5	NC_000071.6 (98167203..98187454)

Chromosome 5 - NC_000071.7 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: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Prdm8 regulates pMN progenitor specification for motor neuron and oligodendrocyte fates by modulating the Shh signaling response.
Title: Prdm8 regulates pMN progenitor specification for motor neuron and oligodendrocyte fates by modulating the Shh signaling response.
inhibits PI3K/AKT/mTOR signaling in hepatocellular carcinoma
Title: PRDM8 exhibits antitumor activities toward hepatocellular carcinoma by targeting NAP1L1.
Our findings highlight the critical role of Ebf3 in multipolar-to-bipolar transition via positive feedback regulation of NeuroD1 in the developing neocortex.
Title: A Prdm8 target gene Ebf3 regulates multipolar-to-bipolar transition in migrating neocortical cells.
findings establish that PRDM8 is required for RB and type 2 OFF-CB cell survival and amacrine subtype identity, and they present PRDM8 as a candidate gene for human CSNB
Title: Transcription factor PRDM8 is required for rod bipolar and type 2 OFF-cone bipolar cell survival and amacrine subtype identity.
Prdm8 regulates the morphological transition at multipolar phase during neocortical development.
Title: Prdm8 regulates the morphological transition at multipolar phase during neocortical development.
These findings suggest that Prdm8 is an obligate partner of Bhlhb5, forming a repressor complex that directs neural circuit assembly in part through the precise regulation of Cadherin-11.
Title: Bhlhb5 and Prdm8 form a repressor complex involved in neuronal circuit assembly.
These results show that Prdm8 expression is tightly regulated in a spatio-temporal manner during neural development and mainly restricted to postmitotic neurons, except in the spinal cord.
Title: Expression of the mouse PR domain protein Prdm8 in the developing central nervous system.
PRDM8 repressed the expression of steroidogenic markers, p450c17c and LHR, which indicates its regulatory role in mouse testis development.
Title: Histone methyltransferase PRDM8 regulates mouse testis steroidogenesis.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (3)
Targeted (2) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

BB347273 (e-PCR)
- UniSTS:209162

39.MMHAP37FRE12.seq (e-PCR)
- UniSTS:124322

Prdm8 (e-PCR), detects polymorphism
- UniSTS:548014

PRDM8_8072 (e-PCR)
- UniSTS:471727

Prdm8 (e-PCR), detects polymorphism
- UniSTS:548015

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables histone H3K9 methyltransferase activity	IDA Inferred from Direct Assay more info	PubMed
enables histone methyltransferase activity	IDA Inferred from Direct Assay more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables transcription corepressor activity	IMP Inferred from Mutant Phenotype more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within central nervous system projection neuron axonogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within corpus callosum morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within corticospinal tract morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in methylation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within negative regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within neurogenesis	IDA Inferred from Direct Assay more info	PubMed
involved_in oligodendrocyte development	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
part_of histone methyltransferase complex	IC Inferred by Curator more info	PubMed
located_in nuclear body	IEA Inferred from Electronic Annotation more info
located_in nuclear body	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	TAS Traceable Author Statement more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: PR domain zinc finger protein 8

Names: PR domain-containing protein 8

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_001407994.1 → NP_001394923.1 PR domain zinc finger protein 8

Status: VALIDATED

Source sequence(s)

AC121929, AC125073

UniProtKB/Swiss-Prot

B2RU90, Q8BZ97

Related

ENSMUSP00000147333.2, ENSMUST00000210477.2
NM_001407995.1 → NP_001394924.1 PR domain zinc finger protein 8

Status: VALIDATED

Source sequence(s)

AC121929, AC125073

UniProtKB/Swiss-Prot

B2RU90, Q8BZ97
NM_001407996.1 → NP_001394925.1 PR domain zinc finger protein 8

Status: VALIDATED

Source sequence(s)

AC125073

UniProtKB/Swiss-Prot

B2RU90, Q8BZ97
NM_029947.3 → NP_084223.2 PR domain zinc finger protein 8

See identical proteins and their annotated locations for NP_084223.2

Status: VALIDATED

Source sequence(s)

AC125073

Consensus CDS

CCDS39178.1

UniProtKB/Swiss-Prot

B2RU90, Q8BZ97

Related

ENSMUSP00000108583.2, ENSMUST00000112959.4

Conserved Domains (3) summary

sd00017
Location:626 → 646

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:666 → 687

zf-C2H2; Zinc finger, C2H2 type

cd19192
Location:6 → 138

PR-SET_PRDM8; PR-SET domain found in PR domain zinc finger protein 8 (PRDM8) and similar proteins

RNA

NR_176436.1 RNA Sequence

Status: VALIDATED

Source sequence(s)

AC125073

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000071.7 Reference GRCm39 C57BL/6J

Range

98315241..98335313

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006535284.5 → XP_006535347.1 PR domain zinc finger protein 8 isoform X1

See identical proteins and their annotated locations for XP_006535347.1

UniProtKB/Swiss-Prot

B2RU90, Q8BZ97

Conserved Domains (3) summary

sd00017
Location:626 → 646

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:666 → 687

zf-C2H2; Zinc finger, C2H2 type

cd19192
Location:6 → 138

PR-SET_PRDM8; PR-SET domain found in PR domain zinc finger protein 8 (PRDM8) and similar proteins