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    TRMT61B tRNA methyltransferase 61B [ Homo sapiens (human) ]

    Gene ID: 55006, updated on 28-Oct-2024

    Summary

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    Official Symbol
    TRMT61Bprovided by HGNC
    Official Full Name
    tRNA methyltransferase 61Bprovided by HGNC
    Primary source
    HGNC:HGNC:26070
    See related
    Ensembl:ENSG00000171103 MIM:619404; AllianceGenome:HGNC:26070
    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
    Summary
    Enables mRNA (adenine-N1-)-methyltransferase activity; rRNA (adenine) methyltransferase activity; and tRNA (adenine(58)-N1)-methyltransferase activity. Involved in mRNA processing and mitochondrial tRNA processing. Located in mitochondrial matrix. [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Ubiquitous expression in testis (RPKM 8.4), small intestine (RPKM 6.4) and 25 other tissues See more
    Orthologs
    all
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    Genomic context

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    See TRMT61B in Genome Data Viewer
    Location:
    2p23.2
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (28849821..28870309, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (28893430..28914555, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (29072687..29093175, complement)

    Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC100505774 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:28945848-28946348 Neighboring gene MPRA-validated peak3641 silencer Neighboring gene PPP1CB divergent transcript Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15524 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15525 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11311 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:28974622-28975266 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:28978040-28978253 Neighboring gene protein phosphatase 1 catalytic subunit beta Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11313 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11314 Neighboring gene speedy/RINGO cell cycle regulator family member A Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:29091169-29091684 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:29091685-29092199 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:29092829-29093353 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15527 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:29105260-29105423 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11315 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:29117677-29118300 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:29118301-29118922 Neighboring gene WD repeat domain 43 Neighboring gene small nucleolar RNA, C/D box 92 Neighboring gene small nucleolar RNA, C/D box 53

    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 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. Mitochondrial 16S rRNA Is Methylated by tRNA Methyltransferase TRMT61B in All Vertebrates. Bar-Yaacov D, et al. PLoS Biol, 2016 Sep. PMID 27631568, Free PMC Article
    2. TRMT61B rs4563180 G>C variant reduces hepatoblastoma risk: a case-control study of seven medical centers. Zeng D, et al. Aging (Albany NY), 2023 Aug 1. PMID 37531210, Free PMC Article
    3. Trmt61B is a methyltransferase responsible for 1-methyladenosine at position 58 of human mitochondrial tRNAs. Chujo T, et al. RNA, 2012 Dec. PMID 23097428, Free PMC Article
    4. Base-Resolution Mapping Reveals Distinct m(1)A Methylome in Nuclear- and Mitochondrial-Encoded Transcripts. Li X, et al. Mol Cell, 2017 Dec 7. PMID 29107537, Free PMC Article
    5. APEX Fingerprinting Reveals the Subcellular Localization of Proteins of Interest. Lee SY, et al. Cell Rep, 2016 May 24. PMID 27184847

    See all (41) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. TRMT61B rs4563180 G>C variant reduces hepatoblastoma risk: a case-control study of seven medical centers.
      Title: TRMT61B rs4563180 G>C variant reduces hepatoblastoma risk: a case-control study of seven medical centers.
    2. 16S rRNA RNA-DNA differences result from a 1-methyladenosine (m1A) modification introduced by TRMT61B.
      Title: Mitochondrial 16S rRNA Is Methylated by tRNA Methyltransferase TRMT61B in All Vertebrates.
    3. Unlike the cytoplasmic tRNA m(1)A58 methyltransferase that consists of an alpha2beta2 heterotetramer formed by Trmt61A and Trmt6, Trmt61B formed a homo-oligomer (presumably a homotetramer) that resembled the bacterial homotetrameric m(1)A58 methyltransferase.
      Title: Trmt61B is a methyltransferase responsible for 1-methyladenosine at position 58 of human mitochondrial tRNAs.
    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

    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

    • FLJ20628, DKFZp564I2178

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables mRNA (adenine-N1-)-methyltransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables rRNA (adenine) methyltransferase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables tRNA (adenine(58)-N1)-methyltransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in mRNA processing IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in mitochondrial tRNA processing IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in rRNA methylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in tRNA methylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in mitochondrial matrix IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in mitochondrial matrix TAS
    Traceable Author Statement
    more info
    		  
    located_in mitochondrion HTP PubMed 
    is_active_in mitochondrion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in mitochondrion IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of tRNA (m1A) methyltransferase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial
    Names
    mRNA methyladenosine-N(1)-methyltransferase
    potential tRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61B
    potential tRNA (adenine-N(1)-)-methyltransferase catalytic subunit TRMT61B
    tRNA methyltransferase 61 homolog B
    NP_060380.3
    XP_005264450.1
    XP_006712100.1
    XP_016859890.1
    XP_016859892.1
    XP_047300796.1
    XP_047300797.1
    XP_047300798.1
    XP_047300799.1
    XP_047300800.1
    XP_054198662.1
    XP_054198663.1
    XP_054198664.1
    XP_054198665.1
    XP_054198666.1
    XP_054198667.1
    XP_054198668.1
    XP_054198669.1
    XP_054198670.1
    XP_054198671.1
    XP_054198672.1

    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_017910.4 → NP_060380.3  tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial precursor

      See identical proteins and their annotated locations for NP_060380.3

      Status: VALIDATED

      Source sequence(s)
      AC097720, AL136689, BC000952
      Consensus CDS
      CCDS1768.1
      UniProtKB/Swiss-Prot
      Q9BVS5, Q9H0Q9, Q9NWS7
      Related
      ENSP00000302801.5, ENST00000306108.10
      Conserved Domains (1) summary
      cl25960
      Location:150 → 474
      GCD14_N; tRNA methyltransferase complex GCD14 subunit N-term

    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_000002.12 Reference GRCh38.p14 Primary Assembly

      Range
      28849821..28870309 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047444843.1 → XP_047300799.1  tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial isoform X7

    2. XM_017004401.3 → XP_016859890.1  tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial isoform X3

    3. XM_006712037.4 → XP_006712100.1  tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial isoform X2

      Conserved Domains (2) summary
      COG2519
      Location:150 → 376
      Gcd14; tRNA A58 N-methylase Trm61 [Translation, ribosomal structure and biogenesis]
      pfam10577
      Location:43 → 141
      UPF0560; uncharacterized protein family UPF0560

    4. XM_047444841.1 → XP_047300797.1  tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial isoform X5

      UniProtKB/TrEMBL
      F8WDR2
      Related
      ENSP00000389617.1, ENST00000439947.1

    5. XM_005264393.4 → XP_005264450.1  tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial isoform X1

      Conserved Domains (3) summary
      COG2519
      Location:150 → 465
      Gcd14; tRNA A58 N-methylase Trm61 [Translation, ribosomal structure and biogenesis]
      pfam10577
      Location:43 → 141
      UPF0560; uncharacterized protein family UPF0560
      cl17173
      Location:227 → 457
      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). ...

    6. XM_017004403.2 → XP_016859892.1  tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial isoform X9

    7. XM_047444840.1 → XP_047300796.1  tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial isoform X4

    8. XM_047444842.1 → XP_047300798.1  tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial isoform X6

    9. XM_047444844.1 → XP_047300800.1  tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial isoform X8

    RNA

    1. XR_939691.3 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060926.1 Alternate T2T-CHM13v2.0

      Range
      28893430..28914555 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054342693.1 → XP_054198668.1  tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial isoform X7

    2. XM_054342689.1 → XP_054198664.1  tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial isoform X3

    3. XM_054342688.1 → XP_054198663.1  tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial isoform X2

    4. XM_054342691.1 → XP_054198666.1  tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial isoform X5

      UniProtKB/TrEMBL
      F8WDR2

    5. XM_054342687.1 → XP_054198662.1  tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial isoform X1

    6. XM_054342697.1 → XP_054198672.1  tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial isoform X9

    7. XM_054342690.1 → XP_054198665.1  tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial isoform X4

    8. XM_054342692.1 → XP_054198667.1  tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial isoform X6

    9. XM_054342694.1 → XP_054198669.1  tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial isoform X8

    10. XM_054342696.1 → XP_054198671.1  tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial isoform X10

    11. XM_054342695.1 → XP_054198670.1  tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial isoform X10

    RNA

    1. XR_008486422.1 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9BVS5.2 GenPept UniProtKB/Swiss-Prot:Q9BVS5

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