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    Nsun6 NOP2/Sun RNA methyltransferase 6 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 307148, updated on 19-Jun-2024

    Summary

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    Official Symbol
    Nsun6provided by RGD
    Official Full Name
    NOP2/Sun RNA methyltransferase 6provided by RGD
    Primary source
    RGD:1309535
    See related
    Ensembl:ENSRNOG00000018520 AllianceGenome:RGD:1309535
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Nopd1
    Summary
    Predicted to enable tRNA (cytosine-5-)-methyltransferase activity and tRNA binding activity. Predicted to be involved in tRNA C5-cytosine methylation. Predicted to be located in cytoplasm. Orthologous to human NSUN6 (NOP2/Sun RNA methyltransferase 6). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 84.7), Heart (RPKM 45.9) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Nsun6 in Genome Data Viewer
    Location:
    17q12.3
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 17 NC_086035.1 (82820938..82864140, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 17 NC_051352.1 (77912374..77955694, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (82020316..82060533, complement)

    Chromosome 17 - NC_086035.1Genomic Context describing neighboring genes Neighboring gene calcium voltage-gated channel auxiliary subunit beta 2 Neighboring gene U2 spliceosomal RNA Neighboring gene transfer RNA alanine (anticodon CGC) 5 Neighboring gene uncharacterized LOC134482754 Neighboring gene ADP-ribosylation factor like GTPase 5B Neighboring gene casein kinase 1, alpha 1, pseudogene 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Structural basis for substrate binding and catalytic mechanism of a human RNA:m5C methyltransferase NSun6. Liu RJ, et al. Nucleic Acids Res, 2017 Jun 20. PMID 28531330, Free PMC Article
    2. Sequence-specific and Shape-selective RNA Recognition by the Human RNA 5-Methylcytosine Methyltransferase NSun6. Long T, et al. J Biol Chem, 2016 Nov 11. PMID 27703015, Free PMC Article
    3. NSUN6 is a human RNA methyltransferase that catalyzes formation of m5C72 in specific tRNAs. Haag S, et al. RNA, 2015 Sep. PMID 26160102, Free PMC Article
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables tRNA (cytidine-5-)-methyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables tRNA binding ISO
    Inferred from Sequence Orthology
    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 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, member 6
    NOP2/Sun RNA methyltransferase family member 6
    NOP2/Sun domain family, member 6
    nucleolar protein (NOL1/NOP2/sun) and PUA domains 1
    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_001107367.2 → NP_001100837.1  tRNA (cytosine(72)-C(5))-methyltransferase NSUN6

      See identical proteins and their annotated locations for NP_001100837.1

      Status: PROVISIONAL

      Source sequence(s)
      BC162024
      UniProtKB/TrEMBL
      B1WC69, F7ENF9
      Related
      ENSRNOP00000025046.4, ENSRNOT00000025046.6
      Conserved Domains (3) summary
      smart00359
      Location:113 → 202
      PUA; Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase
      COG0144
      Location:193 → 465
      RsmB; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]
      cl17173
      Location:227 → 464
      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). ...

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086035.1 Reference GRCr8

      Range
      82820938..82864140 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063276497.1 → XP_063132567.1  tRNA (cytosine(72)-C(5))-methyltransferase NSUN6 isoform X4

    2. XM_063276498.1 → XP_063132568.1  tRNA (cytosine(72)-C(5))-methyltransferase NSUN6 isoform X4

    3. XM_063276499.1 → XP_063132569.1  tRNA (cytosine(72)-C(5))-methyltransferase NSUN6 isoform X6

    4. XM_039095798.2 → XP_038951726.1  tRNA (cytosine(72)-C(5))-methyltransferase NSUN6 isoform X3

      Conserved Domains (1) summary
      COG0144
      Location:5 → 376
      RsmB; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]

    5. XM_008771869.4 → XP_008770091.1  tRNA (cytosine(72)-C(5))-methyltransferase NSUN6 isoform X1

      Conserved Domains (3) summary
      smart00359
      Location:112 → 201
      PUA; Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase
      COG0144
      Location:192 → 464
      RsmB; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]
      cl17173
      Location:226 → 463
      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). ...

    6. XM_017600572.3 → XP_017456061.1  tRNA (cytosine(72)-C(5))-methyltransferase NSUN6 isoform X2

      Conserved Domains (2) summary
      COG0144
      Location:5 → 377
      RsmB; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]
      cl17173
      Location:139 → 376
      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). ...

    7. XM_039095802.2 → XP_038951730.1  tRNA (cytosine(72)-C(5))-methyltransferase NSUN6 isoform X5

      Conserved Domains (2) summary
      COG0144
      Location:52 → 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

    8. XM_039095804.2 → XP_038951732.1  tRNA (cytosine(72)-C(5))-methyltransferase NSUN6 isoform X7

      Conserved Domains (2) summary
      COG0144
      Location:193 → 301
      RsmB; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]
      cd21150
      Location:113 → 202
      PUA_NSun6-like; PUA RNA-binding domain of the SAM-dependent methyltransferase NSun6 and similar proteins
    Nucleotide Protein Strain
    Heading Accession and Version

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