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    Rpf2 ribosome production factor 2 homolog [ Rattus norvegicus (Norway rat) ]

    Gene ID: 294436, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Rpf2provided by RGD
    Official Full Name
    ribosome production factor 2 homologprovided by RGD
    Primary source
    RGD:1306906
    See related
    Ensembl:ENSRNOG00000000587 AllianceGenome:RGD:1306906
    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
    Bxdc1
    Summary
    Predicted to enable 5S rRNA binding activity. Predicted to be involved in protein localization to nucleolus; regulation of signal transduction by p53 class mediator; and ribosomal large subunit biogenesis. Predicted to be located in chromosome and nucleoplasm. Predicted to be active in nucleolus. Orthologous to human RPF2 (ribosome production factor 2 homolog). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 111.0), Spleen (RPKM 96.6) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rpf2 in Genome Data Viewer
    Location:
    20q12
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (45184511..45205983, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (43630003..43651477, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (45321381..45342865, complement)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene solute carrier family 16 member 10 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene uncharacterized LOC108349085 Neighboring gene small nucleolar RNA, H/ACA box 69 Neighboring gene small nucleolar RNA SNORA9 Neighboring gene general transcription factor 3C subunit 6

    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. The 5S RNP couples p53 homeostasis to ribosome biogenesis and nucleolar stress. Sloan KE, et al. Cell Rep, 2013 Oct 17. PMID 24120868, 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. 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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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables 5S rRNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables rRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein localization to nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of signal transduction by p53 class mediator ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in ribosomal large subunit assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in ribosomal large subunit biogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in chromosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleolus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    ribosome production factor 2 homolog
    Names
    brix domain containing 1

    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_001106391.2 → NP_001099861.1  ribosome production factor 2 homolog

      See identical proteins and their annotated locations for NP_001099861.1

      Status: PROVISIONAL

      Source sequence(s)
      BC158719
      UniProtKB/TrEMBL
      A0A8I6AJR1, B0BN82, F7ENM1
      Related
      ENSRNOP00000093895.1, ENSRNOT00000095674.1
      Conserved Domains (1) summary
      cl00935
      Location:6 → 286
      Brix; Brix domain

    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_086038.1 Reference GRCr8

      Range
      45184511..45205983 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039098599.2 → XP_038954527.1  ribosome production factor 2 homolog isoform X1

      Conserved Domains (1) summary
      cl00935
      Location:5 → 196
      Brix; Brix domain
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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