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

Gene ID: 106338, updated on 2-Nov-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 (cytidine-5-)-methyltransferase activity. Predicted to be involved in rRNA methylation; regulation of mitochondrial translation; and tRNA wobble base cytosine 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, Nov 2024]
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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See Nsun3 in Genome Data Viewer
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 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

Variation

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Alleles

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

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
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 (cytidine-5-)-methyltransferase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables tRNA binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
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 regulation of mitochondrial translation ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in tRNA wobble base cytosine methylation ISO
Inferred from Sequence Orthology
more info
  
involved_in tRNA wobble base cytosine methylation ISS
Inferred from Sequence or Structural Similarity
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 mitochondrial matrix ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in mitochondrion ISO
Inferred from Sequence Orthology
more info
  
located_in mitochondrion ISS
Inferred from Sequence or Structural Similarity
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

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