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    Rpusd3 RNA pseudouridine synthase D3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362416, updated on 27-Dec-2024

    Summary

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    Official Symbol
    Rpusd3provided by RGD
    Official Full Name
    RNA pseudouridine synthase D3provided by RGD
    Primary source
    RGD:1307582
    See related
    EnsemblRapid:ENSRNOG00000009084 AllianceGenome:RGD:1307582
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1307582
    Summary
    Predicted to enable RNA binding activity and pseudouridine synthase activity. Predicted to be involved in mRNA pseudouridine synthesis and positive regulation of mitochondrial translation. Predicted to be located in mitochondrial matrix and ribonucleoprotein granule. Orthologous to human RPUSD3 (RNA pseudouridine synthase D3). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Kidney (RPKM 74.1), Liver (RPKM 57.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rpusd3 in Genome Data Viewer
    Location:
    4q42
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (148108857..148118246, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (146553743..146562789, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (145361937..145370992, complement)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene U2 spliceosomal RNA Neighboring gene transcriptional adaptor 3 Neighboring gene actin related protein 2/3 complex, subunit 4 Neighboring gene tubulin tyrosine ligase like 3 Neighboring gene uncharacterized LOC102548450 Neighboring gene cell death-inducing DFFA-like effector c

    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. A Genome-wide CRISPR Death Screen Identifies Genes Essential for Oxidative Phosphorylation. Arroyo JD, et al. Cell Metab, 2016 Dec 13. PMID 27667664, Free PMC Article
    2. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
    3. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Castello A, et al. Cell, 2012 Jun 8. PMID 22658674
    4. 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 RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables pseudouridine synthase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in mRNA pseudouridine synthesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA pseudouridine synthesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of mitochondrial translation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in pseudouridine synthesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in mitochondrial matrix IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in mitochondrial matrix ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in ribonucleoprotein granule ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    mitochondrial mRNA pseudouridine synthase RPUSD3
    Names
    RNA pseudouridylate synthase domain containing 3
    RNA pseudouridylate synthase domain-containing protein 3

    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_001108641.2 → NP_001102111.1  mitochondrial mRNA pseudouridine synthase RPUSD3 isoform 2

      See identical proteins and their annotated locations for NP_001102111.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/TrEMBL
      A0A8I6A4J9, A6IBR4, D4A6T2
      Related
      ENSRNOP00000059503.1, ENSRNOT00000068001.3
      Conserved Domains (1) summary
      cd02869
      Location:72 → 244
      PseudoU_synth_RluCD_like; Pseudouridine synthase, RsuA/RluD family

    2. NM_001398862.1 → NP_001385791.1  mitochondrial mRNA pseudouridine synthase RPUSD3 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/TrEMBL
      A0A8I6A4J9, A6IBR5
      Related
      ENSRNOP00000088174.1, ENSRNOT00000110484.2
      Conserved Domains (1) summary
      cd02869
      Location:85 → 270
      PseudoU_synth_RluA_like; Pseudouridine synthase, RluA family

    3. NM_001398863.1 → NP_001385792.1  mitochondrial mRNA pseudouridine synthase RPUSD3 isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004
      Related
      ENSRNOP00000111416.1, ENSRNOT00000150372.1
      Conserved Domains (1) summary
      cd02869
      Location:85 → 270
      PseudoU_synth_RluA_like; Pseudouridine synthase, RluA family

    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_086022.1 Reference GRCr8

      Range
      148108857..148118246 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063286303.1 → XP_063142373.1  mitochondrial mRNA pseudouridine synthase RPUSD3 isoform X2

    2. XM_006237045.3 → XP_006237107.1  mitochondrial mRNA pseudouridine synthase RPUSD3 isoform X1

      UniProtKB/TrEMBL
      A0A8I6A4J9
      Conserved Domains (1) summary
      cd02869
      Location:74 → 259
      PseudoU_synth_RluCD_like; Pseudouridine synthase, RsuA/RluD family
    Nucleotide Protein Strain
    Heading Accession and Version

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