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

Gene ID: 445388, updated on 4-Jan-2025

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 catalytic 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, Jan 2025]
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. 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
  3. 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
  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
    A0A8M9Q8F5, 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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