Prdm2 PR/SET domain 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Prdm2provided by RGD
Official Full Name: PR/SET domain 2provided by RGD
Primary source: RGD:1594531
See related: EnsemblRapid:ENSRNOG00000033522 AllianceGenome:RGD:1594531
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Riz
Summary: Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific; DNA-binding transcription repressor activity, RNA polymerase II-specific; and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Involved in response to estradiol. Predicted to be located in Golgi apparatus and nucleoplasm. Predicted to be active in nucleus. Orthologous to human PRDM2 (PR/SET domain 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Spleen (RPKM 61.3), Kidney (RPKM 56.5) and 9 other tissues See more
Orthologs: human mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 5q36

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (160704396..160815184, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (155421066..155531884, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (161769587..161879150, complement)

Chromosome 5 - NC_086023.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Findings indicate that PRDM2-mediated reprogramming of the genome in neurons of the dorsomedial prefrontal cortex is involved in increasing alcohol self-administration, compulsive-like drinking and stress-induced relapse. This broad spectrum of actions provides a strong rationale to explore PRMD2 itself or some of its downstream targets as candidate targets for novel alcoholism medications.
Title: Dependence-induced increase of alcohol self-administration and compulsive drinking mediated by the histone methyltransferase PRDM2.

Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Markers

PMC312773P3 (e-PCR)
- UniSTS:272919

BE120443 (e-PCR)
- UniSTS:247333

42.MMHAP20FRF12.seq (e-PCR)
- UniSTS:124455

D5Got96 (e-PCR)
- UniSTS:111755

ksks160 (e-PCR)
- UniSTS:514187

RH135296 (e-PCR)
- UniSTS:218573

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription repressor activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription repressor activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables histone H3K9 trimethyltransferase activity	IEA Inferred from Electronic Annotation more info
enables histone methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in determination of adult lifespan	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within determination of adult lifespan	ISO Inferred from Sequence Orthology more info
involved_in methylation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in response to estradiol	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in Golgi apparatus	IEA Inferred from Electronic Annotation more info
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation 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

Go to the top of the page Help

Preferred Names: PR domain zinc finger protein 2

Names: PR domain 2; PR domain containing 2, with ZNF domain; PR domain-containing protein 2; retinoblastoma interacting zinc finger protein; retinoblastoma protein-binding zinc finger protein; retinoblastoma protein-interacting zinc finger protein; zinc finger protein RIZ

NP_001071116.2

EC 2.1.1.355

XP_017448915.1

EC 2.1.1.355

XP_038966015.1

EC 2.1.1.355

XP_038966018.1

EC 2.1.1.355

XP_063143890.1

EC 2.1.1.355

XP_063143891.1

EC 2.1.1.355

XP_063143892.1

EC 2.1.1.355

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001077648.2 → NP_001071116.2 PR domain zinc finger protein 2

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000005

UniProtKB/Swiss-Prot

Q63755

UniProtKB/TrEMBL

F1LQ66

Related

ENSRNOP00000046011.3, ENSRNOT00000041175.6

Conserved Domains (4) summary

sd00017
Location:1125 → 1145

ZF_C2H2; C2H2 Zn finger [structural motif]

cd19188
Location:22 → 144

PR-SET_PRDM2; PR-SET domain found in PR domain zinc finger protein 2 (PRDM2) and similar proteins

pfam00096
Location:355 → 377

zf-C2H2; Zinc finger, C2H2 type

pfam13894
Location:476 → 499

zf-C2H2_4; C2H2-type zinc finger

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_086023.1 Reference GRCr8

Range

160704396..160815184 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063287822.1 → XP_063143892.1 PR domain zinc finger protein 2 isoform X5
XM_039110087.2 → XP_038966015.1 PR domain zinc finger protein 2 isoform X1

UniProtKB/Swiss-Prot

Q63755

UniProtKB/TrEMBL

F1LQ66

Conserved Domains (4) summary

sd00017
Location:1125 → 1145

ZF_C2H2; C2H2 Zn finger [structural motif]

cd19188
Location:22 → 144

PR-SET_PRDM2; PR-SET domain found in PR domain zinc finger protein 2 (PRDM2) and similar proteins

pfam00096
Location:355 → 377

zf-C2H2; Zinc finger, C2H2 type

pfam13894
Location:476 → 499

zf-C2H2_4; C2H2-type zinc finger
XM_017593426.3 → XP_017448915.1 PR domain zinc finger protein 2 isoform X1

UniProtKB/Swiss-Prot

Q63755

UniProtKB/TrEMBL

F1LQ66

Conserved Domains (4) summary

sd00017
Location:1125 → 1145

ZF_C2H2; C2H2 Zn finger [structural motif]

cd19188
Location:22 → 144

PR-SET_PRDM2; PR-SET domain found in PR domain zinc finger protein 2 (PRDM2) and similar proteins

pfam00096
Location:355 → 377

zf-C2H2; Zinc finger, C2H2 type

pfam13894
Location:476 → 499

zf-C2H2_4; C2H2-type zinc finger
XM_063287821.1 → XP_063143891.1 PR domain zinc finger protein 2 isoform X3

Related

ENSRNOP00000106619.1, ENSRNOT00000124287.1
XM_039110090.2 → XP_038966018.1 PR domain zinc finger protein 2 isoform X4

UniProtKB/Swiss-Prot

Q63755

Conserved Domains (2) summary

sd00017
Location:925 → 945

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:155 → 177

zf-C2H2; Zinc finger, C2H2 type
XM_063287820.1 → XP_063143890.1 PR domain zinc finger protein 2 isoform X2