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    Urb1 URB1 ribosome biogenesis homolog [ Rattus norvegicus (Norway rat) ]

    Gene ID: 304104, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Urb1provided by RGD
    Official Full Name
    URB1 ribosome biogenesis homologprovided by RGD
    Primary source
    RGD:1304621
    See related
    EnsemblRapid:ENSRNOG00000002080 AllianceGenome:RGD:1304621
    Gene type
    protein coding
    RefSeq status
    INFERRED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1304621
    Summary
    Predicted to be involved in maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) and maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA). Predicted to be located in fibrillar center. Predicted to be active in nucleolus. Orthologous to human URB1 (URB1 ribosome biogenesis homolog). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Adrenal (RPKM 112.9), Thymus (RPKM 98.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Urb1 in Genome Data Viewer
    Location:
    11q11
    Exon count:
    40
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 11 NC_086029.1 (43490633..43551398, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 11 NC_051346.1 (30004539..30065315, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (30916740..30977423, complement)

    Chromosome 11 - NC_086029.1Genomic Context describing neighboring genes Neighboring gene MIS18 kinetochore protein A Neighboring gene melanocortin 2 receptor accessory protein Neighboring gene uncharacterized LOC134481053 Neighboring gene eva-1 homolog C Neighboring gene small nucleolar RNA SNORA2/SNORA34 family

    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. NOP132 is required for proper nucleolus localization of DEAD-box RNA helicase DDX47. Sekiguchi T, et al. Nucleic Acids Res, 2006. PMID 16963496, 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

    Process Evidence Code Pubs
    involved_in maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    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
    		  
    Component Evidence Code Pubs
    located_in fibrillar center IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in fibrillar center 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
    		  

    General protein information

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    Preferred Names
    nucleolar pre-ribosomal-associated protein 1
    Names
    URB1 ribosome biogenesis 1 homolog

    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_001191661.1 → NP_001178590.1  nucleolar pre-ribosomal-associated protein 1

      Status: INFERRED

      Source sequence(s)
      JAXUCZ010000011
      UniProtKB/TrEMBL
      A0A8I6GDM7, D4A7S4
      Related
      ENSRNOP00000002851.6, ENSRNOT00000002851.9
      Conserved Domains (2) summary
      pfam11707
      Location:78 → 396
      Npa1; Ribosome 60S biogenesis N-terminal
      pfam16201
      Location:1670 → 1859
      NopRA1; Nucleolar pre-ribosomal-associated protein 1

    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_086029.1 Reference GRCr8

      Range
      43490633..43551398 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039088427.2 → XP_038944355.1  nucleolar pre-ribosomal-associated protein 1 isoform X1

      Conserved Domains (1) summary
      pfam11707
      Location:78 → 396
      Npa1; Ribosome 60S biogenesis N-terminal

    2. XM_039088428.2 → XP_038944356.1  nucleolar pre-ribosomal-associated protein 1 isoform X2

      Conserved Domains (1) summary
      pfam11707
      Location:78 → 396
      Npa1; Ribosome 60S biogenesis N-terminal
    Nucleotide Protein Strain
    Heading Accession and Version

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