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    Rcl1 RNA terminal phosphate cyclase-like 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 309301, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Rcl1provided by RGD
    Official Full Name
    RNA terminal phosphate cyclase-like 1provided by RGD
    Primary source
    RGD:1305320
    See related
    EnsemblRapid:ENSRNOG00000015491 AllianceGenome:RGD:1305320
    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
    Ac1292; Ab1-353
    Summary
    Predicted to enable RNA endonuclease activity. Predicted to be involved in endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) and ribosomal small subunit biogenesis. Predicted to act upstream of or within endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) and endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA). Predicted to be part of small-subunit processome. Predicted to be active in nucleolus. Orthologous to human RCL1 (RNA terminal phosphate cyclase like 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Liver (RPKM 252.0), Adrenal (RPKM 85.2) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rcl1 in Genome Data Viewer
    Location:
    1q52
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (236238078..236282597)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (226824561..226869046)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (247228012..247272369)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene adenylate kinase 3 Neighboring gene uncharacterized LOC120100015 Neighboring gene microRNA 101-2 Neighboring gene uncharacterized LOC134483986 Neighboring gene Janus kinase 2

    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. Rcl1p, the yeast protein similar to the RNA 3'-phosphate cyclase, associates with U3 snoRNP and is required for 18S rRNA biogenesis. Billy E, et al. EMBO J, 2000 May 2. PMID 10790377, 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. 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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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA endonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    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
    		  
    acts_upstream_of_or_within endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in ribosomal small subunit biogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleolus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of small-subunit processome ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    RNA 3'-terminal phosphate cyclase-like protein

    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_001399456.1 → NP_001386385.1  RNA 3'-terminal phosphate cyclase-like protein isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      A6I0V4, G3V7Z1, Q5BJN0
      Related
      ENSRNOP00000020809.6, ENSRNOT00000020809.8
      Conserved Domains (1) summary
      TIGR03400
      Location:8 → 371
      18S_RNA_Rcl1p; 18S rRNA biogenesis protein RCL1

    2. NM_001399457.1 → NP_001386386.1  RNA 3'-terminal phosphate cyclase-like protein isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001

    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_086019.1 Reference GRCr8

      Range
      236238078..236282597
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063264530.1 → XP_063120600.1  RNA 3'-terminal phosphate cyclase-like protein isoform X1

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001013152.1: Suppressed sequence

      Description
      NM_001013152.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

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