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    Nsun3 NOL1/NOP2/Sun domain family member 3 [ Mus musculus (house mouse) ]

    Gene ID: 106338, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Nsun3provided by MGI
    Official Full Name
    NOL1/NOP2/Sun domain family member 3provided by MGI
    Primary source
    MGI:MGI:2146565
    See related
    Ensembl:ENSMUSG00000050312 AllianceGenome:MGI:2146565
    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
    6720484A09Rik
    Summary
    Predicted to enable tRNA (cytosine-5-)-methyltransferase activity. Predicted to be involved in rRNA methylation; regulation of mitochondrial translation; and tRNA wobble base cytosine methylation. Predicted to act upstream of or within methylation. Predicted to be located in mitochondrial matrix. Predicted to be part of mitochondrial large ribosomal subunit. Is expressed in several structures, including branchial arch; central nervous system; extraembryonic component; neural ectoderm; and sensory organ. Human ortholog(s) of this gene implicated in combined oxidative phosphorylation deficiency 48. Orthologous to human NSUN3 (NOP2/Sun RNA methyltransferase 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in genital fat pad adult (RPKM 2.4), bladder adult (RPKM 2.3) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    16 C1.3; 16 36.43 cM
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 16 NC_000082.7 (62552807..62607238, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 16 NC_000082.6 (62732444..62786884, complement)

    Chromosome 16 - NC_000082.7Genomic Context describing neighboring genes Neighboring gene NSA2 ribosome biogenesis homolog pseudogene Neighboring gene G protein pathway suppressor 1 pseudogene Neighboring gene STARR-seq mESC enhancer starr_41128 Neighboring gene predicted gene, 52231 Neighboring gene STARR-positive B cell enhancer ABC_E7471 Neighboring gene ADP-ribosylation factor-like 13B Neighboring gene syntaxin 19 Neighboring gene CapStarr-seq enhancer MGSCv37_chr16:62846895-62847078 Neighboring gene STARR-seq mESC enhancer starr_41130 Neighboring gene STARR-seq mESC enhancer starr_41131 Neighboring gene protein S (alpha)

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. RNA cytosine methyltransferase Nsun3 regulates embryonic stem cell differentiation by promoting mitochondrial activity. Trixl L, et al. Cell Mol Life Sci, 2018 Apr. PMID 29103146, Free PMC Article
    2. NSUN3-mediated mitochondrial tRNA 5-formylcytidine modification is essential for embryonic development and respiratory complexes in mice. Murakami Y, et al. Commun Biol, 2023 Mar 22. PMID 36949224, Free PMC Article
    3. Expression of NOL1/NOP2/sun domain (Nsun) RNA methyltransferase family genes in early mouse embryogenesis. Chi L, et al. Gene Expr Patterns, 2013 Dec. PMID 23816522
    4. Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Ko MS, et al. Development, 2000 Apr. PMID 10725249
    5. BayGenomics: a resource of insertional mutations in mouse embryonic stem cells. Stryke D, et al. Nucleic Acids Res, 2003 Jan 1. PMID 12520002, Free PMC Article

    See all (17) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. NSUN3-mediated mitochondrial tRNA 5-formylcytidine modification is essential for embryonic development and respiratory complexes in mice.
      Title: NSUN3-mediated mitochondrial tRNA 5-formylcytidine modification is essential for embryonic development and respiratory complexes in mice.
    2. Nsun3 regulates embryonic stem cell differentiation by promoting mitochondrial activity.
      Title: RNA cytosine methyltransferase Nsun3 regulates embryonic stem cell differentiation by promoting mitochondrial activity.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables methyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables tRNA (cytidine-5-)-methyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables tRNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA methylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within methylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in rRNA methylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of mitochondrial translation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in tRNA wobble base cytosine methylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of mitochondrial large ribosomal subunit IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in mitochondrial matrix ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    tRNA (cytosine(34)-C(5))-methyltransferase, mitochondrial
    Names
    NOL1/NOP2/Sun domain family 3
    putative methyltransferase NSUN3
    NP_001406041.1
    NP_001406042.1
    NP_849256.1
    XP_036015621.1

    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_001419112.1 → NP_001406041.1  tRNA (cytosine(34)-C(5))-methyltransferase, mitochondrial isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC154309

    2. NM_001419113.1 → NP_001406042.1  tRNA (cytosine(34)-C(5))-methyltransferase, mitochondrial isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC154309

    3. NM_178925.4 → NP_849256.1  tRNA (cytosine(34)-C(5))-methyltransferase, mitochondrial isoform 1

      See identical proteins and their annotated locations for NP_849256.1

      Status: VALIDATED

      Source sequence(s)
      AC154309
      Consensus CDS
      CCDS37373.1
      UniProtKB/Swiss-Prot
      Q3TE43, Q8CCT7
      Related
      ENSMUSP00000059720.6, ENSMUST00000063089.12
      Conserved Domains (1) summary
      cl17173
      Location:124 → 332
      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). ...

    RNA

    1. NR_185018.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC154309
      Related
      ENSMUST00000143314.8

    2. NR_185019.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC154309

    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
      62552807..62607238 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036159728.1 → XP_036015621.1  tRNA (cytosine(34)-C(5))-methyltransferase, mitochondrial isoform X2

      Conserved Domains (1) summary
      COG0144
      Location:105 → 162
      RsmB; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8CCT7.1 GenPept UniProtKB/Swiss-Prot:Q8CCT7

    Gene LinkOut

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

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