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    Utp23 UTP23, small subunit processome component [ Rattus norvegicus (Norway rat) ]

    Gene ID: 299900, updated on 27-Dec-2024

    Summary

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    Official Symbol
    Utp23provided by RGD
    Official Full Name
    UTP23, small subunit processome componentprovided by RGD
    Primary source
    RGD:1307179
    See related
    EnsemblRapid:ENSRNOG00000063314 AllianceGenome:RGD:1307179
    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
    RGD1307179
    Summary
    Predicted to enable mRNA 3'-UTR binding activity and mRNA 5'-UTR binding activity. Predicted to act upstream of or within endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA). Human ortholog(s) of this gene implicated in colorectal adenocarcinoma. Orthologous to human UTP23 (UTP23 small subunit processome component). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Kidney (RPKM 63.1), Thymus (RPKM 57.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Utp23 in Genome Data Viewer
    Location:
    7q31
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (85074713..85084766)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (83185187..83196652)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (91384329..91389605)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134479728 Neighboring gene eukaryotic translation initiation factor 3, subunit H Neighboring gene ribosomal protein S16, pseudogene 9 Neighboring gene RAD21 cohesin complex component

    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. Recurrent Coding Sequence Variation Explains Only A Small Fraction of the Genetic Architecture of Colorectal Cancer. Timofeeva MN, et al. Sci Rep, 2015 Nov 10. PMID 26553438, Free PMC Article
    2. Two orthogonal cleavages separate subunit RNAs in mouse ribosome biogenesis. Wang M, et al. Nucleic Acids Res, 2014. PMID 25190460, Free PMC Article
    3. The roles of SSU processome components and surveillance factors in the initial processing of human ribosomal RNA. Sloan KE, et al. RNA, 2014 Apr. PMID 24550520, Free PMC Article
    4. Regulation of p53 translation and induction after DNA damage by ribosomal protein L26 and nucleolin. Takagi M, et al. Cell, 2005 Oct 7. PMID 16213212
    5. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Castello A, et al. Cell, 2012 Jun 8. PMID 22658674

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables mRNA 3'-UTR binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables mRNA 5'-UTR binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    acts_upstream_of_or_within endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    rRNA-processing protein UTP23 homolog
    Names
    UTP23, small subunit (SSU) processome component, 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_001126266.1 → NP_001119738.1  rRNA-processing protein UTP23 homolog

      See identical proteins and their annotated locations for NP_001119738.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473950
      UniProtKB/TrEMBL
      A0A8I6A8S2, A6HRE2, B1WBU0
      Conserved Domains (1) summary
      cd09866
      Location:19 → 148
      PIN_Fcf1-Utp23-H; VapC-like PIN domain of rRNA-processing protein Fcf1- and Utp23-like homologs found in eukaryotes except fungi; similar to human rRNA-processing protein UTP23

    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_086025.1 Reference GRCr8

      Range
      85074713..85084766
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063263245.1 → XP_063119315.1  rRNA-processing protein UTP23 homolog isoform X1

      UniProtKB/TrEMBL
      A0A8I6A8S2, A6HRE2, B1WBU0

    2. XM_039078769.2 → XP_038934697.1  rRNA-processing protein UTP23 homolog isoform X1

      UniProtKB/TrEMBL
      A0A8I6A8S2, A6HRE2, B1WBU0
      Related
      ENSRNOP00000088155.2, ENSRNOT00000119001.2
      Conserved Domains (1) summary
      cd09866
      Location:19 → 148
      PIN_Fcf1-Utp23-H; VapC-like PIN domain of rRNA-processing protein Fcf1- and Utp23-like homologs found in eukaryotes except fungi; similar to human rRNA-processing protein UTP23

    3. XM_063263246.1 → XP_063119316.1  rRNA-processing protein UTP23 homolog isoform X2

      UniProtKB/TrEMBL
      A6HRE4
    Nucleotide Protein Strain
    Heading Accession and Version

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