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

Gene ID: 362416, updated on 2-Nov-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 positive regulation of mitochondrial translation. Predicted to be located in mitochondrion and ribonucleoprotein granule. Orthologous to human RPUSD3 (RNA pseudouridine synthase D3). [provided by Alliance of Genome Resources, Nov 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 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 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 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
    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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