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Nsun6 NOL1/NOP2/Sun domain family member 6 [ Mus musculus (house mouse) ]

Gene ID: 74455, updated on 21-Apr-2024

Summary

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Official Symbol
Nsun6provided by MGI
Official Full Name
NOL1/NOP2/Sun domain family member 6provided by MGI
Primary source
MGI:MGI:1921705
See related
Ensembl:ENSMUSG00000026707 AllianceGenome:MGI:1921705
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
NOPD1; 4933403D21Rik; 4933414E04Rik
Summary
Predicted to enable tRNA (cytosine-5-)-methyltransferase activity and tRNA binding activity. Predicted to be involved in tRNA C5-cytosine methylation. Predicted to act upstream of or within methylation. Predicted to be located in cytoplasm. Is expressed in several structures, including branchial arch; central nervous system; extraembryonic component; limb bud; and sensory organ. Orthologous to human NSUN6 (NOP2/Sun RNA methyltransferase 6). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 1.6), CNS E18 (RPKM 1.5) and 27 other tissues See more
Orthologs
human all
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Genomic context

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Location:
2 A2; 2 10.94 cM
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (14995255..15059683, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (14990444..15055144, complement)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene calcium channel, voltage-dependent, beta 2 subunit Neighboring gene predicted gene 13269 Neighboring gene TAF5-like RNA polymerase II, p300/CBP-associated factor (PCAF)-associated factor pseudogene Neighboring gene STARR-seq mESC enhancer starr_03734 Neighboring gene STARR-seq mESC enhancer starr_03735 Neighboring gene STARR-positive B cell enhancer ABC_E7794 Neighboring gene STARR-seq mESC enhancer starr_03736 Neighboring gene STARR-seq mESC enhancer starr_03737 Neighboring gene ADP-ribosylation factor-like 5B Neighboring gene peptidylprolyl isomerase D (cyclophilin D) pseudogene

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. A Cross-Tissue Investigation of Molecular Targets and Physiological Functions of Nsun6 Using Knockout Mice. Wang W, et al. Int J Mol Sci, 2022 Jun 13. PMID 35743028, Free PMC Article
  2. Sequence- and structure-specific cytosine-5 mRNA methylation by NSUN6. Selmi T, et al. Nucleic Acids Res, 2021 Jan 25. PMID 33330931, 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. Diet1 functions in the FGF15/19 enterohepatic signaling axis to modulate bile acid and lipid levels. Vergnes L, et al. Cell Metab, 2013 Jun 4. PMID 23747249, Free PMC Article
  5. EUCOMM--the European conditional mouse mutagenesis program. Friedel RH, et al. Brief Funct Genomic Proteomic, 2007 Sep. PMID 17967808

See all (17) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Sequence- and structure-specific cytosine-5 mRNA methylation by NSUN6.
    Title: Sequence- and structure-specific cytosine-5 mRNA methylation by NSUN6.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (1) 
  • Endonuclease-mediated (5)  1 citation

General gene information

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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 IEA
Inferred from Electronic Annotation
more info
  
enables tRNA (cytidine-5-)-methyltransferase activity ISO
Inferred from Sequence Orthology
more info
  
enables tRNA binding ISO
Inferred from Sequence Orthology
more info
  
enables transferase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in RNA methylation IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within methylation IEA
Inferred from Electronic Annotation
more info
  
involved_in tRNA C5-cytosine methylation ISO
Inferred from Sequence Orthology
more info
  
involved_in tRNA methylation ISO
Inferred from Sequence Orthology
more info
  
involved_in tRNA modification ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
tRNA (cytosine(72)-C(5))-methyltransferase NSUN6
Names
NOL1/NOP2/Sun domain family 6
putative methyltransferase NSUN6

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_001165941.2 → NP_001159413.1  tRNA (cytosine(72)-C(5))-methyltransferase NSUN6 isoform a

    See identical proteins and their annotated locations for NP_001159413.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a). Variants 1 and 2 both encode the same isoform.
    Source sequence(s)
    AL928632, AL929268
    Consensus CDS
    CCDS15703.1
    UniProtKB/Swiss-Prot
    Q7TS68, Q8R3C4, Q9D445
    Related
    ENSMUSP00000075766.3, ENSMUST00000076435.9
    Conserved Domains (2) summary
    smart00359
    Location:112 → 202
    PUA; Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase
    COG0144
    Location:215 → 465
    RsmB; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]

  2. NM_001165942.1 → NP_001159414.1  tRNA (cytosine(72)-C(5))-methyltransferase NSUN6 isoform b

    See identical proteins and their annotated locations for NP_001159414.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (b) has a shorter and distinct C-terminus compared to isoform a.
    Source sequence(s)
    AK042750, AL928632
    Consensus CDS
    CCDS50507.1
    UniProtKB/TrEMBL
    Q8BXZ8
    Related
    ENSMUSP00000110361.2, ENSMUST00000114713.2

  3. NM_001165943.2 → NP_001159415.1  tRNA (cytosine(72)-C(5))-methyltransferase NSUN6 isoform c

    See identical proteins and their annotated locations for NP_001159415.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (c) is shorter at the N-terminus compared to isoform a.
    Source sequence(s)
    AL928632, AL929268
    Consensus CDS
    CCDS50506.1
    UniProtKB/TrEMBL
    A2ASK1
    Related
    ENSMUSP00000110363.2, ENSMUST00000114715.8
    Conserved Domains (2) summary
    COG0144
    Location:164 → 414
    RsmB; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]
    cd21150
    Location:62 → 151
    PUA_NSun6-like; PUA RNA-binding domain of the SAM-dependent methyltransferase NSun6 and similar proteins

  4. NM_001355685.1 → NP_001342614.1  tRNA (cytosine(72)-C(5))-methyltransferase NSUN6 isoform d

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (d) is shorter at the N-terminus compared to isoform a.
    Source sequence(s)
    AL928632
    Conserved Domains (2) summary
    COG0144
    Location:74 → 324
    RsmB; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]
    cd21150
    Location:1 → 61
    PUA_NSun6-like; PUA RNA-binding domain of the SAM-dependent methyltransferase NSun6 and similar proteins

  5. NM_028950.5 → NP_083226.3  tRNA (cytosine(72)-C(5))-methyltransferase NSUN6 isoform a

    See identical proteins and their annotated locations for NP_083226.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 both encode the same isoform (a).
    Source sequence(s)
    AL928632
    Consensus CDS
    CCDS15703.1
    UniProtKB/Swiss-Prot
    Q7TS68, Q8R3C4, Q9D445
    Related
    ENSMUSP00000028034.9, ENSMUST00000028034.15
    Conserved Domains (2) summary
    smart00359
    Location:112 → 202
    PUA; Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase
    COG0144
    Location:215 → 465
    RsmB; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]

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_000068.8 Reference GRCm39 C57BL/6J

    Range
    14995255..15059683 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036162643.1 → XP_036018536.1  tRNA (cytosine(72)-C(5))-methyltransferase NSUN6 isoform X1

    UniProtKB/TrEMBL
    A2ASK1
    Conserved Domains (2) summary
    COG0144
    Location:164 → 414
    RsmB; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]
    cd21150
    Location:62 → 151
    PUA_NSun6-like; PUA RNA-binding domain of the SAM-dependent methyltransferase NSun6 and similar proteins

  2. XM_036162644.1 → XP_036018537.1  tRNA (cytosine(72)-C(5))-methyltransferase NSUN6 isoform X2

    Conserved Domains (2) summary
    COG0144
    Location:74 → 324
    RsmB; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]
    cd21150
    Location:1 → 61
    PUA_NSun6-like; PUA RNA-binding domain of the SAM-dependent methyltransferase NSun6 and similar proteins

RNA

  1. XR_004940757.1 RNA Sequence

  2. XR_004940756.1 RNA Sequence

  3. XR_004940755.1 RNA Sequence

  4. XR_004940754.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q7TS68.2 GenPept UniProtKB/Swiss-Prot:Q7TS68

Gene LinkOut

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

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