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riox1 ribosomal oxygenase 1 [ Danio rerio (zebrafish) ]

Gene ID: 560815, updated on 28-Oct-2024

Summary

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Official Symbol
riox1provided by ZNC
Official Full Name
ribosomal oxygenase 1provided by ZNC
Primary source
ZFIN:ZDB-GENE-041008-221
See related
Ensembl:ENSDARG00000067838 AllianceGenome:ZFIN:ZDB-GENE-041008-221
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
no66; no66a; im:7141580; zgc:162967
Summary
Predicted to enable 2-oxoglutarate-dependent dioxygenase activity and iron ion binding activity. Predicted to be involved in negative regulation of DNA-templated transcription and negative regulation of osteoblast differentiation. Predicted to act upstream of or within chromatin organization. Predicted to be located in nucleus. Predicted to be active in nucleolus. Orthologous to human RIOX1 (ribosomal oxygenase 1). [provided by Alliance of Genome Resources, Oct 2024]
Orthologs
human mouse all
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Genomic context

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See riox1 in Genome Data Viewer
Location:
chromosome: 20
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 20 NC_007131.7 (50015689..50044757)
105 previous assembly GRCz10 (GCF_000002035.5) 20 NC_007131.6 (50212485..50242523)

Chromosome 20 - NC_007131.7Genomic Context describing neighboring genes Neighboring gene integrator complex subunit 9 Neighboring gene exostosin-like glycosyltransferase 3 Neighboring gene uncharacterized LOC101885653 Neighboring gene NADH:ubiquinone oxidoreductase subunit B1 Neighboring gene cleavage and polyadenylation specific factor 2

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 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. The histone demethylase Jmjd3 regulates zebrafish myeloid development by promoting spi1 expression. Yu SH, et al. Biochim Biophys Acta Gene Regul Mech, 2018 Feb. PMID 29378332, Free PMC Article
  2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  3. 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
  4. 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 ZFIN

Function Evidence Code Pubs
enables 2-oxoglutarate-dependent dioxygenase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables dioxygenase activity IEA
Inferred from Electronic Annotation
more info
  
enables histone H3K36 demethylase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables histone H3K36 demethylase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables histone H3K36me/H3K36me2 demethylase activity IEA
Inferred from Electronic Annotation
more info
  
enables histone H3K4 demethylase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables histone H3K4me/H3K4me2/H3K4me3 demethylase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables iron ion binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables oxidoreductase activity IEA
Inferred from Electronic Annotation
more info
  
enables peptidyl-histidine dioxygenase activity IEA
Inferred from Electronic Annotation
more info
  
enables peptidyl-histidine dioxygenase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within chromatin organization IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of DNA-templated transcription ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in negative regulation of osteoblast differentiation ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
is_active_in nucleolus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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Preferred Names
ribosomal oxygenase 1
Names
bifunctional lysine-specific demethylase and histidyl-hydroxylase NO66
histone lysine demethylase NO66
lysine-specific demethylase NO66
nucleolar protein 66
NP_001082857.1

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_001089388.1 → NP_001082857.1  ribosomal oxygenase 1

    See identical proteins and their annotated locations for NP_001082857.1

    Status: PROVISIONAL

    Source sequence(s)
    BC134172
    UniProtKB/Swiss-Prot
    A3KP59
    Related
    ENSDARP00000088500.3, ENSDART00000097729.5
    Conserved Domains (1) summary
    cl21464
    Location:121 → 420
    cupin_like; Conserved domain found in cupin and related proteins

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_007131.7 Reference GRCz11 Primary Assembly

    Range
    50015689..50044757
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
A3KP59.1 GenPept UniProtKB/Swiss-Prot:A3KP59

Gene LinkOut

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