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

Gene ID: 90826, updated on 11-Apr-2024

Summary

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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
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Genomic context

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Location:
4q31.23
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (147637785..147684163, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (150961873..151008254, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (148558936..148605314, complement)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene TMEM184C divergent transcript Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22001 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22002 Neighboring gene transmembrane protein 184C Neighboring gene NANOG hESC enhancer GRCh37_chr4:148576650-148577308 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:148619575-148620075 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22003 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:148652850-148653742 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:148653743-148654635 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22005 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:148659209-148659934 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22006 Neighboring gene Rho GTPase activating protein 10 Neighboring gene RNA, 5S ribosomal pseudogene 165 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22007 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22008 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22009 Neighboring gene microRNA 4799

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. PRMT9 promotes hepatocellular carcinoma invasion and metastasis via activating PI3K/Akt/GSK-3β/Snail signaling. Jiang H, et al. Cancer Sci, 2018 May. PMID 29603830, Free PMC Article
  2. Interplay between chromatin remodelers and protein arginine methyltransferases. Pal S, et al. J Cell Physiol, 2007 Nov. PMID 17708529
  3. Protein arginine methyltransferase 10 is required for androgen-dependent proliferation of LNCaP prostate cancer cells. Harada N, et al. Biosci Biotechnol Biochem, 2015. PMID 25799006
  4. The protein arginine methyltransferase family: an update about function, new perspectives and the physiological role in humans. Wolf SS. Cell Mol Life Sci, 2009 Jul. PMID 19300908
  5. MiRNA-543 promotes osteosarcoma cell proliferation and glycolysis by partially suppressing PRMT9 and stabilizing HIF-1α protein. Zhang H, et al. Oncotarget, 2017 Jan 10. PMID 27911265, Free PMC Article

See all (22) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. 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.
  2. 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.
  3. The protein arginine methyltransferase PRMT9 attenuates MAVS activation through arginine methylation.
    Title: The protein arginine methyltransferase PRMT9 attenuates MAVS activation through arginine methylation.
  4. 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.
  5. 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.
  6. 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.
  7. 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.
  8. 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.
Submit: New GeneRIF Correction

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)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ46629

Gene Ontology Provided by GOA

Function Evidence Code Pubs
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 peptidyl-arginine methylation, to asymmetrical-dimethyl arginine IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 

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
NP_001337070.1
NP_001337071.1
NP_001337072.1
NP_001337073.1
NP_612373.2
XP_047272349.1
XP_054207191.1
XP_054207192.1
XP_054207193.1

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

  1. NG_053105.1 RefSeqGene

    Range
    5068..51446
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. 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). ...

  2. NM_001350141.2 → NP_001337070.1  protein arginine N-methyltransferase 9 isoform 3

    Status: REVIEWED

    Source sequence(s)
    AC093835

  3. 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). ...

  4. NM_001350143.2 → NP_001337072.1  protein arginine N-methyltransferase 9 isoform 5

    Status: REVIEWED

    Source sequence(s)
    AC093835

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

    Status: REVIEWED

    Source sequence(s)
    AC093835

  6. 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_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000004.12 Reference GRCh38.p14 Primary Assembly

    Range
    147637785..147684163 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060928.1 Alternate T2T-CHM13v2.0

    Range
    150961873..151008254 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054351216.1 → XP_054207191.1  protein arginine N-methyltransferase 9 isoform X1

  2. XM_054351217.1 → XP_054207192.1  protein arginine N-methyltransferase 9 isoform X2

  3. XM_054351218.1 → XP_054207193.1  protein arginine N-methyltransferase 9 isoform X2

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6P2P2.1 GenPept UniProtKB/Swiss-Prot:Q6P2P2

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