PRMT9 protein arginine methyltransferase 9 [Homo sapiens (human)] - Gene

Summary

Official Symbol: PRMT9provided by HGNC
Official Full Name: protein arginine methyltransferase 9provided by HGNC
Primary source: HGNC:HGNC:25099
See related: Ensembl:ENSG00000164169 MIM:616125; AllianceGenome:HGNC:25099
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: PRMT10
Summary: This gene encodes a type II methyltransferase. Post-translational modification of target proteins by PRMTs plays an important regulatory role in many biological processes, whereby PRMTs methylate arginine residues by transferring methyl groups from S-adenosyl-L-methionine to the guanidino nitrogen atoms of arginine. The protein encoded by this gene methylates spliceosome associated protein 145 to regulate alternative splicing and acts as a modulator of small nuclear ribonucleoprotein maturation. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Apr 2017]
Expression: Ubiquitous expression in adrenal (RPKM 9.7), thyroid (RPKM 7.6) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 4q31.23

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	4	NC_000004.12 (147637785..147684163, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	4	NC_060928.1 (150961873..151008254, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	4	NC_000004.11 (148558936..148605314, complement)

Chromosome 4 - NC_000004.12 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: HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Loss-of-function mutation in PRMT9 causes abnormal synapse development by dysregulation of RNA alternative splicing.
Title: Loss-of-function mutation in PRMT9 causes abnormal synapse development by dysregulation of RNA alternative splicing.
Arginine methylation of HSPA8 by PRMT9 inhibits ferroptosis to accelerate hepatitis B virus-associated hepatocellular carcinoma progression.
Title: Arginine methylation of HSPA8 by PRMT9 inhibits ferroptosis to accelerate hepatitis B virus-associated hepatocellular carcinoma progression.
The protein arginine methyltransferase PRMT9 attenuates MAVS activation through arginine methylation.
Title: The protein arginine methyltransferase PRMT9 attenuates MAVS activation through arginine methylation.
Study demonstrated that PRMT9 is an oncogene that plays an important role in hepatocellular carcinoma cells invasion and metastasis through EMT by regulating Snail expression via activation of the PI3K/Akt/GSK-3beta/Snail signaling pathway.
Title: PRMT9 promotes hepatocellular carcinoma invasion and metastasis via activating PI3K/Akt/GSK-3β/Snail signaling.
Mechanistically, miR-543 inhibited PRMT9-enhanced cell oxidative phosphorylation, while miR-543 depletion promoted PRMT9-increased HIF-1alpha instability and inhibited glycolysis in osteosarcoma (OS) cells. Clinically, miR-543 expression was negatively correlated with PRMT9 expression in OS tissues.
Title: MiRNA-543 promotes osteosarcoma cell proliferation and glycolysis by partially suppressing PRMT9 and stabilizing HIF-1α protein.
The decrease in PRMT10 was canceled by knockdown of AR or an AR antagonist. These results indicate that PRMT10 plays an important role in androgen-dependent proliferation of prostate cancer cells
Title: Protein arginine methyltransferase 10 is required for androgen-dependent proliferation of LNCaP prostate cancer cells.
PRMT9 is a type II methyltransferase that methylates the splicing factor SAP145.
Title: PRMT9 is a type II methyltransferase that methylates the splicing factor SAP145.
Although amino acid substitutions of residues surrounding Arg-508 had no great effect on PRMT9 recognition of SF3B2, moving the arginine residue within this sequence abolished methylation.
Title: Unique Features of Human Protein Arginine Methyltransferase 9 (PRMT9) and Its Substrate RNA Splicing Factor SF3B2.

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Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

SHGC-58310 (e-PCR)
- UniSTS:40471

SHGC-132984 (e-PCR)
- UniSTS:170964

RH93088 (e-PCR)
- UniSTS:83691

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables histone H2AQ104 methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables histone H3K37 methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables histone H3K56 methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables histone H3R17 methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables histone H3R2 methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables histone H3R26 methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables histone H3R8 methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables histone H4K12 methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables histone H4R3 methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables histone arginine N-methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables histone methyltransferase activity	IBA Inferred from Biological aspect of Ancestor more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein-arginine N-methyltransferase activity	IBA Inferred from Biological aspect of Ancestor more info
enables protein-arginine N-methyltransferase activity	IDA Inferred from Direct Assay more info	PubMed
enables protein-arginine N-methyltransferase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables protein-arginine omega-N symmetric methyltransferase activity	IMP Inferred from Mutant Phenotype more info	PubMed

Process	Evidence Code	Pubs
involved_in chromatin remodeling	IBA Inferred from Biological aspect of Ancestor more info
involved_in mRNA processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in methylation	IEA Inferred from Electronic Annotation more info
involved_in regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: protein arginine N-methyltransferase 9

Names: protein arginine N-methyltransferase 10; protein arginine methyltransferase 10 (putative); putative protein arginine N-methyltransferase 10; putative protein arginine N-methyltransferase 9

NP_001291387.1

EC 2.1.1.320

NP_001337070.1

EC 2.1.1.320

NP_001337071.1

EC 2.1.1.320

NP_001337072.1

EC 2.1.1.320

NP_001337073.1

EC 2.1.1.320

NP_612373.2

EC 2.1.1.320

XP_047272349.1

EC 2.1.1.320

XP_054207191.1

EC 2.1.1.320

XP_054207192.1

EC 2.1.1.320

XP_054207193.1

EC 2.1.1.320

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.

Genomic

NG_053105.1 RefSeqGene

Range

5068..51446

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001304458.2 → NP_001291387.1 protein arginine N-methyltransferase 9 isoform 2

See identical proteins and their annotated locations for NP_001291387.1

Status: REVIEWED

Description

Transcript Variant: This variant (2) lacks an alternate exon in the 5' coding region and uses a downstream start codon compared to variant 1. It encodes isoform 2 which has a shorter N-terminus compared to isoform 1.

Source sequence(s)

AC093835, AK096703, BC004337, DB077123

UniProtKB/Swiss-Prot

Q6P2P2

Conserved Domains (1) summary

cl17173
Location:35 → 190

AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
NM_001350141.2 → NP_001337070.1 protein arginine N-methyltransferase 9 isoform 3

Status: REVIEWED

Source sequence(s)

AC093835
NM_001350142.2 → NP_001337071.1 protein arginine N-methyltransferase 9 isoform 2

Status: REVIEWED

Source sequence(s)

AC093835

Conserved Domains (1) summary

cl17173
Location:35 → 190

AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
NM_001350143.2 → NP_001337072.1 protein arginine N-methyltransferase 9 isoform 5

Status: REVIEWED

Source sequence(s)

AC093835
NM_001350144.2 → NP_001337073.1 protein arginine N-methyltransferase 9 isoform 6

Status: REVIEWED

Source sequence(s)

AC093835
NM_138364.4 → NP_612373.2 protein arginine N-methyltransferase 9 isoform 1

See identical proteins and their annotated locations for NP_612373.2

Status: REVIEWED

Description

Transcript Variant: This variant (1) encodes the longest isoform (1).

Source sequence(s)

AC093835, BC004337, BC064403, DB077123

Consensus CDS

CCDS3771.1

UniProtKB/Swiss-Prot

A8KA39, B3KU92, Q6P2P2, Q6ZR58, Q8N383, Q9BT55, Q9NT98

Related

ENSP00000314396.6, ENST00000322396.7

Conserved Domains (3) summary

COG0457
Location:39 → 144

TPR; Tetratricopeptide (TPR) repeat [General function prediction only]

sd00006
Location:68 → 95

TPR; TPR repeat [structural motif]

cl17173
Location:148 → 303

AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000004.12 Reference GRCh38.p14 Primary Assembly

Range

147637785..147684163 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_047416393.1 → XP_047272349.1 protein arginine N-methyltransferase 9 isoform X1

Alternate T2T-CHM13v2.0

Genomic

NC_060928.1 Alternate T2T-CHM13v2.0

Range

150961873..151008254 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054351216.1 → XP_054207191.1 protein arginine N-methyltransferase 9 isoform X1
XM_054351217.1 → XP_054207192.1 protein arginine N-methyltransferase 9 isoform X2
XM_054351218.1 → XP_054207193.1 protein arginine N-methyltransferase 9 isoform X2