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    rcl1 RNA terminal phosphate cyclase-like 1 [ Danio rerio (zebrafish) ]

    Gene ID: 445388, updated on 14-Nov-2024

    Summary

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    Official Symbol
    rcl1provided by ZNC
    Official Full Name
    RNA terminal phosphate cyclase-like 1provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040930-11
    See related
    Ensembl:ENSDARG00000038312 AllianceGenome:ZFIN:ZDB-GENE-040930-11
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    zgc:109921
    Summary
    Predicted to enable RNA endonuclease activity. Acts upstream of or within liver development; pancreas development; and rRNA processing. Located in nucleolus. Is expressed in several structures, including alar plate midbrain region; digestive system; head; optic vesicle; and swim bladder. Orthologous to human RCL1 (RNA terminal phosphate cyclase like 1). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See rcl1 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 5 NC_007116.7 (1833655..1869576, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 5 NC_007116.6 (1568330..1604251, complement)

    Chromosome 5 - NC_007116.7Genomic Context describing neighboring genes Neighboring gene protein phosphatase 1, catalytic subunit, gamma isozyme Neighboring gene uncharacterized LOC137495506 Neighboring gene MCC regulator of WNT signaling pathway Neighboring gene microRNA 101b Neighboring gene zgc:101699 Neighboring gene uncharacterized LOC110439839 Neighboring gene si:ch73-55i23.1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Interaction between Bms1 and Rcl1, two ribosome biogenesis factors, is evolutionally conserved in zebrafish and human. Wang Y, et al. J Genet Genomics, 2016 Jul 20. PMID 27474224
    2. Stability and function of RCL1 are dependent on the interaction with BMS1. Wang Y, et al. J Mol Cell Biol, 2024 Jan 5. PMID 37451810, Free PMC Article
    3. An equation to estimate the difference between theoretically predicted and SDS PAGE-displayed molecular weights for an acidic peptide. Guan Y, et al. Sci Rep, 2015 Aug 27. PMID 26311515, Free PMC Article
    4. Rcl1 depletion impairs 18S pre-rRNA processing at the A1-site and up-regulates a cohort of ribosome biogenesis genes in zebrafish. Zhu Q, et al. Nucleic Acids Res, 2021 Jun 4. PMID 34019640, Free PMC Article
    5. Nucleolar GTPase Bms1 displaces Ttf1 from RFB-sites to balance progression of rDNA transcription and replication. Zhu Y, et al. J Mol Cell Biol, 2022 Jan 29. PMID 34791311, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Rcl1 depletion impairs 18S pre-rRNA processing at the A1-site and up-regulates a cohort of ribosome biogenesis genes in zebrafish.
      Title: Rcl1 depletion impairs 18S pre-rRNA processing at the A1-site and up-regulates a cohort of ribosome biogenesis genes in zebrafish.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables catalytic activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within liver development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within pancreas development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within rRNA processing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within ribosome biogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    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_001003865.1 → NP_001003865.1  RNA 3'-terminal phosphate cyclase-like protein

      See identical proteins and their annotated locations for NP_001003865.1

      Status: PROVISIONAL

      Source sequence(s)
      AY648776
      UniProtKB/TrEMBL
      Q6DRI3
      Related
      ENSDARP00000055877.4, ENSDART00000055878.7
      Conserved Domains (2) summary
      cd00875
      Location:2 → 336
      RNA_Cyclase_Class_I; RNA 3' phosphate cyclase domain (class I) This subfamily of cyclase-like proteins are encoded in eukaryotic genomes. They lack a conserved catalytic histidine residue required for cyclase activity, so probably do not function as cyclases. They are ...
      TIGR03400
      Location:1 → 366
      18S_RNA_Rcl1p; 18S rRNA biogenesis protein RCL1

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007116.7 Reference GRCz11 Primary Assembly

      Range
      1833655..1869576 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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