Prdm12 PR domain containing 12 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Prdm12provided by MGI
Official Full Name: PR domain containing 12provided by MGI
Primary source: MGI:MGI:2685844
See related: Ensembl:ENSMUSG00000079466 AllianceGenome:MGI:2685844
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: Gm998
Summary: Predicted to enable histone methyltransferase binding activity. Involved in negative regulation of transcription by RNA polymerase II. Acts upstream of or within neurogenesis and positive regulation of histone H3-K9 methylation. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Is expressed in several structures, including future brain and nervous system. Human ortholog(s) of this gene implicated in hereditary sensory and autonomic neuropathy type 8. Orthologous to human PRDM12 (PR/SET domain 12). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in CNS E11.5 (RPKM 2.6), CNS E14 (RPKM 1.4) and 2 other tissues See more
Orthologs: human all
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Genomic context

Location:: 2; 2 B

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
109	current	GRCm39 (GCF_000001635.27)	2	NC_000068.8 (31525038..31545807)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	2	NC_000068.7 (31635026..31655795)

Chromosome 2 - NC_000068.8 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?

Prdm12 modulates pain-related behavior by remodeling gene expression in mature nociceptors.
Title: Prdm12 modulates pain-related behavior by remodeling gene expression in mature nociceptors.
Loss of Prdm12 during development, but not in mature nociceptors, causes defects in pain sensation.
Title: Loss of Prdm12 during development, but not in mature nociceptors, causes defects in pain sensation.
PRDM12 in Health and Diseases.
Title: PRDM12 in Health and Diseases.
The transcriptional regulator PRDM12 is critical for Pomc expression in the mouse hypothalamus and controlling food intake, adiposity, and body weight.
Title: The transcriptional regulator PRDM12 is critical for Pomc expression in the mouse hypothalamus and controlling food intake, adiposity, and body weight.
Investigation of PRDM7 and PRDM12 expression pattern during mouse embryonic development by using a modified passive clearing technique.
Title: Investigation of PRDM7 and PRDM12 expression pattern during mouse embryonic development by using a modified passive clearing technique.
Prdm12 expression is restricted to developing and adult nociceptors
Title: Prdm12 Directs Nociceptive Sensory Neuron Development by Regulating the Expression of the NGF Receptor TrkA.
results demonstrate that PRDM12 is necessary for the generation of the entire lineage of pain-initiating neurons
Title: PRDM12 Is Required for Initiation of the Nociceptive Neuron Lineage during Neurogenesis.
Prdm12 is induced by the retinoic acid signaling in vivo, and may regulate neural differentiation during animal development.
Title: Prdm12 is induced by retinoic acid and exhibits anti-proliferative properties through the cell cycle modulation of P19 embryonic carcinoma cells.

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Variation

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Alleles

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

Targeted (5) 1 citation
Endonuclease-mediated (2) 1 citation

General gene information

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Markers

D2Mit268 (e-PCR), detects polymorphism
- UniSTS:129149

Prdm12 (e-PCR), detects polymorphism
- UniSTS:547296

Homology

Homologs of the Prdm12 gene: The Prdm12 gene is conserved in human, chimpanzee, dog, cow, rat, chicken, zebrafish, and frog.
Orthologs from Annotation Pipeline: 439 organisms have orthologs with human gene Prdm12
Orthologs

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables histone chaperone activity	IDA Inferred from Direct Assay more info	PubMed
enables histone chaperone activity	ISO Inferred from Sequence Orthology more info	PubMed
enables histone methyltransferase binding	IBA Inferred from Biological aspect of Ancestor more info	PubMed
enables histone methyltransferase binding	ISO Inferred from Sequence Orthology more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables transferase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within detection of temperature stimulus involved in sensory perception of pain	ISO Inferred from Sequence Orthology more info	PubMed
acts_upstream_of_or_within methylation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in neurogenesis	IBA Inferred from Biological aspect of Ancestor more info	PubMed
acts_upstream_of_or_within neurogenesis	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within neuron projection development	ISO Inferred from Sequence Orthology more info	PubMed
involved_in positive regulation of histone H3-K9 dimethylation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within protein methylation	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within protein methylation	ISO Inferred from Sequence Orthology more info	PubMed
acts_upstream_of_or_within sensory perception of pain	ISO Inferred from Sequence Orthology more info	PubMed

Component	Evidence Code	Pubs
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info	PubMed
located_in nucleus	ISO Inferred from Sequence Orthology more info	PubMed

General protein information

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Preferred Names: PR domain zinc finger protein 12

Names: PR domain-containing protein 12

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_001123362.1 → NP_001116834.1 PR domain zinc finger protein 12

See identical proteins and their annotated locations for NP_001116834.1

Status: VALIDATED

Source sequence(s)

AL732564

Consensus CDS

CCDS50562.1

UniProtKB/Swiss-Prot

A2AJ77

UniProtKB/TrEMBL

A0A6P5P7W9, A0A8C6HN00

Related

ENSMUSP00000109098.3, ENSMUST00000113470.3

Conserved Domains (4) summary

sd00017
Location:245 → 265

ZF_C2H2; C2H2 Zn finger [structural motif]

cd19196
Location:84 → 213

PR-SET_PRDM12; PR-SET domain found in PR domain zinc finger protein 12 (PRDM12) and similar proteins

pfam00096
Location:244 → 265

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:257 → 282

zf-H2C2_2; Zinc-finger double domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...

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

Reference GRCm39 C57BL/6J

Genomic

NC_000068.8 Reference GRCm39 C57BL/6J

Range

31525038..31545807

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006498161.4 → XP_006498224.1 PR domain zinc finger protein 12 isoform X1

See identical proteins and their annotated locations for XP_006498224.1

UniProtKB/Swiss-Prot

A2AJ77

UniProtKB/TrEMBL

A0A6P5P7W9, A0A8C6HN00

Conserved Domains (4) summary

sd00017
Location:245 → 265

ZF_C2H2; C2H2 Zn finger [structural motif]

cd19196
Location:84 → 213

PR-SET_PRDM12; PR-SET domain found in PR domain zinc finger protein 12 (PRDM12) and similar proteins

pfam00096
Location:244 → 265

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:257 → 282

zf-H2C2_2; Zinc-finger double domain