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

Gene ID: 304104, updated on 2-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 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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