Prdm8 PR/SET domain 8 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Prdm8provided by RGD
Official Full Name: PR/SET domain 8provided by RGD
Primary source: RGD:1311628
See related: EnsemblRapid:ENSRNOG00000002004 AllianceGenome:RGD:1311628
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 chromatin binding activity; histone H3K9 methyltransferase activity; and transcription corepressor activity. Predicted to be involved in oligodendrocyte development and regulation of DNA-templated transcription. Predicted to act upstream of or within corpus callosum morphogenesis; corticospinal tract morphogenesis; and negative regulation of DNA-templated transcription. Predicted to be located in nuclear body. Predicted to be active in nucleus. 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 Brain (RPKM 19.1), Muscle (RPKM 11.8) and 4 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 14p22

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	14	NC_086032.1 (11708477..11728111, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	14	NC_051349.1 (11403202..11424059, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	14	NC_005113.4 (13052776..13073583, complement)

Chromosome 14 - NC_086032.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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
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

PRDM8_8072 (e-PCR)
- UniSTS:471727

fb33b12.x1 (e-PCR)
- UniSTS:190403

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables histone H3K9 methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables histone methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables transcription corepressor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
acts_upstream_of_or_within central nervous system projection neuron axonogenesis	ISO Inferred from Sequence Orthology more info
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within corpus callosum morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within corticospinal tract morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neurogenesis	ISO Inferred from Sequence Orthology more info
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
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
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
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 8; PR domain containing 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_001371967.1 → NP_001358896.1 PR domain zinc finger protein 8

Status: VALIDATED

Source sequence(s)

JAXUCZ010000014

UniProtKB/TrEMBL

D4A123

Related

ENSRNOP00000002746.4, ENSRNOT00000002746.8

Conserved Domains (3) summary

sd00017
Location:627 → 647

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:667 → 688

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

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086032.1 Reference GRCr8

Range

11708477..11728111 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017599430.3 → XP_017454919.1 PR domain zinc finger protein 8 isoform X1

Conserved Domains (3) summary

sd00017
Location:628 → 648

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:668 → 689

zf-C2H2; Zinc finger, C2H2 type

pfam00856
Location:29 → 131

SET; SET domain
XM_063273053.1 → XP_063129123.1 PR domain zinc finger protein 8 isoform X1

Related

ENSRNOP00000099430.1, ENSRNOT00000173510.1

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001107207.1: Suppressed sequence

Description

NM_001107207.1: This RefSeq was suppressed temporarily based on the calculation that the encoded protein was shorter than proteins from the putative ortholog from human: PRDM8 (GeneID:56978).