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

Gene ID: 309301, updated on 17-Aug-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 endoribonuclease activity. Predicted to be involved in endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA). 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 active in nucleolus. Orthologous to human RCL1 (RNA terminal phosphate cyclase like 1). [provided by Alliance of Genome Resources, Apr 2022]
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 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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