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

    Gene ID: 74455, updated on 2-Nov-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 (cytidine-5-)-methyltransferase activity and tRNA binding activity. Predicted to be involved in tRNA C5-cytosine 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. Human ortholog(s) of this gene implicated in autosomal recessive intellectual developmental disorder 82. Orthologous to human NSUN6 (NOP2/Sun RNA methyltransferase 6). [provided by Alliance of Genome Resources, Nov 2024]
    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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    See Nsun6 in Genome Data Viewer
    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 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)
    • Endonuclease-mediated (5)  1 citation
    • Targeted (1) 

    General gene information

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    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables tRNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA methylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in tRNA C5-cytosine methylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in tRNA C5-cytosine methylation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in tRNA methylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in tRNA methylation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in tRNA modification ISO
    Inferred from Sequence Orthology
    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 (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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