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    Trmt2a TRM2 tRNA methyltransferase 2A [ Mus musculus (house mouse) ]

    Gene ID: 15547, updated on 30-Apr-2024

    Summary

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    Official Symbol
    Trmt2aprovided by MGI
    Official Full Name
    TRM2 tRNA methyltransferase 2Aprovided by MGI
    Primary source
    MGI:MGI:96270
    See related
    Ensembl:ENSMUSG00000022721 AllianceGenome:MGI:96270
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Htf9c
    Summary
    Predicted to enable RNA binding activity and RNA methyltransferase activity. Predicted to be involved in RNA processing. Predicted to act upstream of or within methylation. Is expressed in several structures, including brain; cardiovascular system; forelimb bud; gut; and sensory organ. Orthologous to human TRMT2A (tRNA methyltransferase 2 homolog A). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in limb E14.5 (RPKM 20.3), CNS E14 (RPKM 18.8) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    16 A3; 16 11.31 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 16 NC_000082.7 (18066747..18072636)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 16 NC_000082.6 (18248847..18254772)

    Chromosome 16 - NC_000082.7Genomic Context describing neighboring genes Neighboring gene zinc finger, DHHC domain containing 8 Neighboring gene CapStarr-seq enhancer MGSCv37_chr16:18231149-18231350 Neighboring gene predicted gene, 25777 Neighboring gene RAN binding protein 1 Neighboring gene STARR-positive B cell enhancer ABC_E8621 Neighboring gene DGCR8, microprocessor complex subunit Neighboring gene microRNA 1306 Neighboring gene microRNA 3618

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Cell type-specific interactions of transcription factors with a housekeeping promoter in vivo. Stapleton G, et al. Nucleic Acids Res, 1993 May 25. PMID 8389443, Free PMC Article
    2. Expression of the murine RanBP1 and Htf9-c genes is regulated from a shared bidirectional promoter during cell cycle progression. Guarguaglini G, et al. Biochem J, 1997 Jul 1. PMID 9224656, Free PMC Article
    3. Transcriptional control of the Htf9-A/RanBP-1 gene during the cell cycle. Di Matteo G, et al. Cell Growth Differ, 1995 Oct. PMID 8845298
    4. A fraction of the mouse genome that is derived from islands of nonmethylated, CpG-rich DNA. Bird A, et al. Cell, 1985 Jan. PMID 2981636
    5. Coincident start sites for divergent transcripts at a randomly selected CpG-rich island of mouse. Lavia P, et al. EMBO J, 1987 Sep. PMID 2445562, Free PMC Article

    See all (40) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (3) 

    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

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables C-methyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables tRNA (uracil(54)-C5)-methyltransferase activity, S-adenosyl methionine-dependent ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within methylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within tRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    tRNA (uracil-5-)-methyltransferase homolog A
    Names
    TRM2 tRNA methyltransferase 2 homolog A
    hpaII tiny fragments locus 9c protein
    mRNA (uracil-5-)-methyltransferase TRMT2A
    NP_001074468.1
    NP_001074469.1
    NP_001182134.1
    NP_001344075.1
    NP_001412031.1
    NP_001412032.1
    NP_001412033.1
    XP_036015680.1

    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_001080999.2 → NP_001074468.1  tRNA (uracil-5-)-methyltransferase homolog A isoform 2

      See identical proteins and their annotated locations for NP_001074468.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks a segment of the 5' UTR and 5' coding region, and uses an upstream start codon, compared to variant 1. The resulting isoform (2) has a distinct N-terminus and is the same length as isoform 1.
      Source sequence(s)
      AC084822, AK080170, AK134368
      Consensus CDS
      CCDS37281.1
      UniProtKB/Swiss-Prot
      P70221, P70222, Q3UYU2, Q78E15, Q80VN8, Q8BNV1
      UniProtKB/TrEMBL
      Q3UJM1
      Related
      ENSMUSP00000111304.2, ENSMUST00000115640.8
      Conserved Domains (4) summary
      COG0724
      Location:60 → 201
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      COG2265
      Location:169 → 571
      TrmA; tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure and biogenesis]
      cd12439
      Location:58 → 136
      RRM_TRMT2A; RNA recognition motif in tRNA (uracil-5-)-methyltransferase homolog A (TRMT2A) and similar proteins
      cl17173
      Location:375 → 578
      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_001081000.2 → NP_001074469.1  tRNA (uracil-5-)-methyltransferase homolog A isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes isoform 1.
      Source sequence(s)
      AC084822, AK080170, AK134368, BY090144
      Consensus CDS
      CCDS37282.1
      UniProtKB/TrEMBL
      E9PUQ7, Q3UJM1
      Related
      ENSMUSP00000111303.3, ENSMUST00000100099.10
      Conserved Domains (4) summary
      COG0724
      Location:60 → 201
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      COG2265
      Location:169 → 571
      TrmA; tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure and biogenesis]
      cd12439
      Location:58 → 136
      RRM_TRMT2A; RNA recognition motif in tRNA (uracil-5-)-methyltransferase homolog A (TRMT2A) and similar proteins
      cl17173
      Location:375 → 578
      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_001195205.1 → NP_001182134.1  tRNA (uracil-5-)-methyltransferase homolog A isoform 4

      See identical proteins and their annotated locations for NP_001182134.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks a segment of the 5' UTR and 5' coding region, uses an upstream start codon, and lacks an alternate in-frame exon in the 3' coding region, compared to variant 1. The resulting isoform (4) has a distinct N-terminus and is shorter than isoform 1.
      Source sequence(s)
      AC084822, AK080170, CJ049472
      Consensus CDS
      CCDS57020.1
      UniProtKB/TrEMBL
      Q3UJM1
      Related
      ENSMUSP00000121216.2, ENSMUST00000140206.8
      Conserved Domains (4) summary
      COG0724
      Location:60 → 201
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      COG2265
      Location:169 → 532
      TrmA; tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure and biogenesis]
      cd12439
      Location:58 → 136
      RRM_TRMT2A; RNA recognition motif in tRNA (uracil-5-)-methyltransferase homolog A (TRMT2A) and similar proteins
      cl17173
      Location:375 → 539
      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_001357146.1 → NP_001344075.1  tRNA (uracil-5-)-methyltransferase homolog A isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC084822
      UniProtKB/TrEMBL
      Q05BM5, Q3UJM1
      Conserved Domains (2) summary
      COG2265
      Location:158 → 560
      TrmA; tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure and biogenesis]
      cd12439
      Location:47 → 125
      RRM_TRMT2A; RNA recognition motif in tRNA (uracil-5-)-methyltransferase homolog A (TRMT2A) and similar proteins

    5. NM_001425102.1 → NP_001412031.1  tRNA (uracil-5-)-methyltransferase homolog A isoform 6

      Status: VALIDATED

      Source sequence(s)
      AC084822

    6. NM_001425103.1 → NP_001412032.1  tRNA (uracil-5-)-methyltransferase homolog A isoform 6

      Status: VALIDATED

      Source sequence(s)
      AC084822

    7. NM_001425104.1 → NP_001412033.1  tRNA (uracil-5-)-methyltransferase homolog A isoform 7

      Status: VALIDATED

      Source sequence(s)
      AC084822

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000082.7 Reference GRCm39 C57BL/6J

      Range
      18066747..18072636
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036159787.1 → XP_036015680.1  tRNA (uracil-5-)-methyltransferase homolog A isoform X4

      Related
      ENSMUST00000153292.8
      Conserved Domains (1) summary
      cl17173
      Location:99 → 307
      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). ...

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_008307.2: Suppressed sequence

      Description
      NM_008307.2: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript, which retains an intron.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BNV1.2 GenPept UniProtKB/Swiss-Prot:Q8BNV1

    Gene LinkOut

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

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