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RNMT RNA guanine-7 methyltransferase [ Homo sapiens (human) ]

Gene ID: 8731, updated on 2-Nov-2024

Summary

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Official Symbol
RNMTprovided by HGNC
Official Full Name
RNA guanine-7 methyltransferaseprovided by HGNC
Primary source
HGNC:HGNC:10075
See related
Ensembl:ENSG00000101654 MIM:603514; AllianceGenome:HGNC:10075
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
MET; Met; CMT1; cm1p; hMet; CMT1c; hCMT1; RG7MT1; N7-MTase
Summary
Enables RNA binding activity and mRNA 5'-cap (guanine-N7-)-methyltransferase activity. Involved in 7-methylguanosine mRNA capping. Located in fibrillar center and nucleoplasm. Part of mRNA cap methyltransferase RNMT:RAMAC complex; mRNA capping enzyme complex; and receptor complex. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in brain (RPKM 9.8), thyroid (RPKM 9.0) and 25 other tissues See more
Orthologs
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Genomic context

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See RNMT in Genome Data Viewer
Location:
18p11.21
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 18 NC_000018.10 (13726673..13764556)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 18 NC_060942.1 (13888989..13926829)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 18 NC_000018.9 (13726672..13764555)

Chromosome 18 - NC_000018.10Genomic Context describing neighboring genes Neighboring gene low density lipoprotein receptor class A domain containing 4 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13125 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:13613273-13613792 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:13613793-13614310 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13126 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13127 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:13616337-13616838 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:13623209-13623708 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:13626114-13626614 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:13649057-13649558 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:13649559-13650058 Neighboring gene microRNA 4526 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr18:13672949-13674148 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr18:13675367-13676566 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr18:13688247-13688792 Neighboring gene family with sequence similarity 210 member A Neighboring gene H3K27ac hESC enhancer GRCh37_chr18:13725735-13726660 Neighboring gene RNA, 7SL, cytoplasmic 362, pseudogene Neighboring gene H3K27ac hESC enhancer GRCh37_chr18:13775047-13775546 Neighboring gene ReSE screen-validated silencer GRCh37_chr18:13823817-13823997 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9335 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9336 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:13834952-13835452 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:13872168-13873006 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr18:13876434-13877404 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr18:13878605-13879337 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:13887335-13887847 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9337 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9338 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13129 Neighboring gene melanocortin 5 receptor Neighboring gene melanocortin 2 receptor

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. Kinetic characterization of human mRNA guanine-N7 methyltransferase. Perveen S, et al. Sci Rep, 2024 Feb 24. PMID 38402266, Free PMC Article
  2. Post-transcriptional modifications of mRNA. Purification and characterization of cap I and cap II RNA (nucleoside-2'-)-methyltransferases from HeLa cells. Langberg SR, et al. J Biol Chem, 1981 Oct 10. PMID 7275966
  3. Human mRNA cap methyltransferase: alternative nuclear localization signal motifs ensure nuclear localization required for viability. Shafer B, et al. Mol Cell Biol, 2005 Apr. PMID 15767670, Free PMC Article
  4. Human cap methyltransferase (RNMT) N-terminal non-catalytic domain mediates recruitment to transcription initiation sites. Aregger M, et al. Biochem J, 2013 Oct 1. PMID 23863084, Free PMC Article
  5. RNA guanine-7 methyltransferase catalyzes the methylation of cytoplasmically recapped RNAs. Trotman JB, et al. Nucleic Acids Res, 2017 Oct 13. PMID 28981715, Free PMC Article

See all (73) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Kinetic characterization of human mRNA guanine-N7 methyltransferase.
    Title: Kinetic characterization of human mRNA guanine-N7 methyltransferase.
  2. Identification and Characterization of the Interaction Between the Methyl-7-Guanosine Cap Maturation Enzyme RNMT and the Cap-Binding Protein eIF4E.
    Title: Identification and Characterization of the Interaction Between the Methyl-7-Guanosine Cap Maturation Enzyme RNMT and the Cap-Binding Protein eIF4E.
  3. Data show that most of the cell lines which exhibited enhanced dependency on RNA guanine-7 methyltransferase (RNMT) harboured oncogenic mutations in phosphatidylinositol 3-kinase catalytic 110-KD alpha (PI3Kalpha).
    Title: Oncogenic PIK3CA mutations increase dependency on the mRNA cap methyltransferase, RNMT, in breast cancer cells.
  4. Mechanism of allosteric activation of human RNMT by RAM has been reported.
    Title: Mechanism of allosteric activation of human mRNA cap methyltransferase (RNMT) by RAM: insights from accelerated molecular dynamics simulations.
  5. These findings suggest that multiple interactions among RNMT-RAM, RNA Pol II factors, and RNA along the transcription unit stimulate transcription.
    Title: mRNA Cap Methyltransferase, RNMT-RAM, Promotes RNA Pol II-Dependent Transcription.
  6. Results identify a cytoplasmic pool of RNMT which is a component of the cytoplasmic capping complex, and demonstrate its function as the methyltransferase that catalyzes the final maturation step in cap homeostasis.
    Title: RNA guanine-7 methyltransferase catalyzes the methylation of cytoplasmically recapped RNAs.
  7. MYC promotes mRNA cap methylation and protein production of Wnt/beta-catenin signaling transcripts through recruitment of cyclin-dependent kinase 7 (CDK7) and consequently RNMT to gene promoters.
    Title: MYC Mediates mRNA Cap Methylation of Canonical Wnt/β-Catenin Signaling Transcripts By Recruiting CDK7 and RNA Methyltransferase.
  8. RNMT-RAM complex coordinates mRNA processing with ribosome production.
    Title: c-Myc co-ordinates mRNA cap methylation and ribosomal RNA production.
  9. CDK1-Cyclin B1 activates RNMT, coordinating mRNA cap methylation with G1 phase transcription.
    Title: CDK1-Cyclin B1 Activates RNMT, Coordinating mRNA Cap Methylation with G1 Phase Transcription.
  10. High RNMT expression is associated with liver cancer.
    Title: Genome-wide study of hypomethylated and induced genes in patients with liver cancer unravels novel anticancer targets.
Submit: New GeneRIF Correction See all GeneRIFs (15)

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)

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • KIAA0398, DKFZp686H1252

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables mRNA 5'-cap (guanine-N7-)-methyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables mRNA 5'-cap (guanine-N7-)-methyltransferase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables mRNA 5'-cap (guanine-N7-)-methyltransferase activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables mRNA 5'-cap (guanine-N7-)-methyltransferase activity TAS
Traceable Author Statement
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in 7-methylguanosine mRNA capping IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in 7-methylguanosine mRNA capping IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in 7-methylguanosine mRNA capping IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in 7-methylguanosine mRNA capping TAS
Traceable Author Statement
more info
  
involved_in RNA 5'-cap (guanine-N7)-methylation IEA
Inferred from Electronic Annotation
more info
  
involved_in cellular response to leukemia inhibitory factor IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in fibrillar center IDA
Inferred from Direct Assay
more info
  
part_of mRNA cap methyltransferase RNMT:RAMAC complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of mRNA capping enzyme complex IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
part_of receptor complex IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
mRNA cap guanine-N7 methyltransferase
Names
RNA (guanine-7-) methyltransferase
hcm1p
mRNA (guanine-7-)methyltransferase
mRNA (guanine-N(7)-)-methyltransferase
mRNA cap methyltransferase
NP_001295192.1
NP_001365061.1
NP_001365063.1
NP_001365064.1
NP_003790.1
XP_011524051.1
XP_011524052.1
XP_011524053.1
XP_011524055.1
XP_047293863.1
XP_047293864.1
XP_054175275.1
XP_054175276.1
XP_054175277.1
XP_054175278.1
XP_054175279.1
XP_054175280.1

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.

mRNA and Protein(s)

  1. NM_001308263.2 → NP_001295192.1  mRNA cap guanine-N7 methyltransferase isoform 1

    See identical proteins and their annotated locations for NP_001295192.1

    Status: VALIDATED

    Source sequence(s)
    AB022605, AK292561, AP001525, DA634865
    Consensus CDS
    CCDS77156.1
    UniProtKB/TrEMBL
    A8K946
    Related
    ENSP00000466111.1, ENST00000592764.5
    Conserved Domains (1) summary
    pfam03291
    Location:136 → 466
    Pox_MCEL; mRNA capping enzyme

  2. NM_001378132.1 → NP_001365061.1  mRNA cap guanine-N7 methyltransferase isoform 3

    Status: VALIDATED

    Source sequence(s)
    AP001525
    Consensus CDS
    CCDS92440.1
    UniProtKB/TrEMBL
    K7EP06
    Related
    ENSP00000467171.1, ENST00000588457.5
    Conserved Domains (1) summary
    cl17173
    Location:1 → 297
    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). ...

  3. NM_001378134.1 → NP_001365063.1  mRNA cap guanine-N7 methyltransferase isoform 1

    Status: VALIDATED

    Source sequence(s)
    AP001525
    Consensus CDS
    CCDS77156.1
    UniProtKB/TrEMBL
    A8K946
    Conserved Domains (1) summary
    pfam03291
    Location:136 → 466
    Pox_MCEL; mRNA capping enzyme

  4. NM_001378135.1 → NP_001365064.1  mRNA cap guanine-N7 methyltransferase isoform 2

    Status: VALIDATED

    Source sequence(s)
    AP001525
    Consensus CDS
    CCDS11867.1
    UniProtKB/Swiss-Prot
    B0YJ90, D3DUJ5, O43148, O94996, Q9UIJ9
    UniProtKB/TrEMBL
    A8K946
    Related
    ENSP00000446426.1, ENST00000543302.6
    Conserved Domains (1) summary
    pfam03291
    Location:136 → 475
    Pox_MCEL; mRNA capping enzyme

  5. NM_003799.3 → NP_003790.1  mRNA cap guanine-N7 methyltransferase isoform 2

    See identical proteins and their annotated locations for NP_003790.1

    Status: VALIDATED

    Source sequence(s)
    AB022605, AF067791, AP001525, DA634865
    Consensus CDS
    CCDS11867.1
    UniProtKB/Swiss-Prot
    B0YJ90, D3DUJ5, O43148, O94996, Q9UIJ9
    UniProtKB/TrEMBL
    A8K946
    Related
    ENSP00000372804.2, ENST00000383314.7
    Conserved Domains (1) summary
    pfam03291
    Location:136 → 475
    Pox_MCEL; mRNA capping enzyme

RNA

  1. NR_165427.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AP001525

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

  1. NC_000018.10 Reference GRCh38.p14 Primary Assembly

    Range
    13726673..13764556
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047437908.1 → XP_047293864.1  mRNA cap guanine-N7 methyltransferase isoform X3

    UniProtKB/Swiss-Prot
    B0YJ90, D3DUJ5, O43148, O94996, Q9UIJ9

  2. XM_047437907.1 → XP_047293863.1  mRNA cap guanine-N7 methyltransferase isoform X2

  3. XM_011525749.3 → XP_011524051.1  mRNA cap guanine-N7 methyltransferase isoform X1

    See identical proteins and their annotated locations for XP_011524051.1

    UniProtKB/TrEMBL
    A8K946
    Conserved Domains (2) summary
    COG0500
    Location:196 → 414
    SmtA; SAM-dependent methyltransferase [Secondary metabolites biosynthesis, transport and catabolism, General function prediction only]
    pfam03291
    Location:136 → 468
    Pox_MCEL; mRNA capping enzyme

  4. XM_011525751.2 → XP_011524053.1  mRNA cap guanine-N7 methyltransferase isoform X1

    See identical proteins and their annotated locations for XP_011524053.1

    UniProtKB/TrEMBL
    A8K946
    Conserved Domains (2) summary
    COG0500
    Location:196 → 414
    SmtA; SAM-dependent methyltransferase [Secondary metabolites biosynthesis, transport and catabolism, General function prediction only]
    pfam03291
    Location:136 → 468
    Pox_MCEL; mRNA capping enzyme

  5. XM_011525750.3 → XP_011524052.1  mRNA cap guanine-N7 methyltransferase isoform X1

    See identical proteins and their annotated locations for XP_011524052.1

    UniProtKB/TrEMBL
    A8K946
    Conserved Domains (2) summary
    COG0500
    Location:196 → 414
    SmtA; SAM-dependent methyltransferase [Secondary metabolites biosynthesis, transport and catabolism, General function prediction only]
    pfam03291
    Location:136 → 468
    Pox_MCEL; mRNA capping enzyme

  6. XM_011525753.3 → XP_011524055.1  mRNA cap guanine-N7 methyltransferase isoform X4

    Conserved Domains (2) summary
    COG0500
    Location:18 → 149
    SmtA; SAM-dependent methyltransferase [Secondary metabolites biosynthesis, transport and catabolism, General function prediction only]
    cl17173
    Location:1 → 290
    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). ...

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060942.1 Alternate T2T-CHM13v2.0

    Range
    13888989..13926829
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054319300.1 → XP_054175275.1  mRNA cap guanine-N7 methyltransferase isoform X1

  2. XM_054319301.1 → XP_054175276.1  mRNA cap guanine-N7 methyltransferase isoform X1

  3. XM_054319305.1 → XP_054175280.1  mRNA cap guanine-N7 methyltransferase isoform X4

  4. XM_054319304.1 → XP_054175279.1  mRNA cap guanine-N7 methyltransferase isoform X3

    UniProtKB/Swiss-Prot
    B0YJ90, D3DUJ5, O43148, O94996, Q9UIJ9

  5. XM_054319303.1 → XP_054175278.1  mRNA cap guanine-N7 methyltransferase isoform X2

  6. XM_054319302.1 → XP_054175277.1  mRNA cap guanine-N7 methyltransferase isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O43148.1 GenPept UniProtKB/Swiss-Prot:O43148

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