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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
    mouse all
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    Genomic context

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    See PRMT9 in Genome Data Viewer
    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, Free PMC Article
    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

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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