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    2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 836428, updated on 18-Sep-2024

    Summary

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    Official Full Name
    2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily protein
    Primary source
    TAIR:AT5G63080
    Locus tag
    AT5G63080
    See related
    Araport:AT5G63080
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    JMJ20; Jumonji domain-containing protein 20; MDC12.4; MDC12_4
    Summary
    Encodes a HR demethylase that acts as a positive regulator of seed germination in the PHYB-PIL5-SOM pathway.
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    Genomic context

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    Location:
    chromosome: 5
    Exon count:
    9
    Sequence:
    Chromosome: 5; NC_003076.8 (25299933..25302476, complement)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene Plant thionin family protein Neighboring gene Ribosomal protein S19 family protein Neighboring gene Plant thionin family protein Neighboring gene ncRNA

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Control of seed germination by light-induced histone arginine demethylation activity. Cho JN, et al. Dev Cell, 2012 Apr 17. PMID 22483719
    2. MAPK target networks in Arabidopsis thaliana revealed using functional protein microarrays. Popescu SC, et al. Genes Dev, 2009 Jan 1. PMID 19095804, Free PMC Article
    3. Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana. Tabata S, et al. Nature, 2000 Dec 14. PMID 11130714

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_125702.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables cis-regulatory region sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables histone H3R2 demethylase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables histone H4R3 demethylase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables histone H4R3 demethylase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in epigenetic regulation of gene expression IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within_positive_effect gibberellin mediated signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of seed germination IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in positive regulation of seed germination IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of photomorphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in response to red light IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in response to red light IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily protein
    NP_201113.2
    • 2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily protein; CONTAINS InterPro DOMAIN/s: Transcription factor jumonji/aspartyl beta-hydroxylase (InterPro:IPR003347), Transcription factor jumonji (InterPro:IPR013129); BEST Arabidopsis thaliana protein match is: transferases, transferring glycosyl groups (TAIR:AT1G78280.1); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

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

    Reference assembly

    Genomic

    1. NC_003076.8 Reference assembly

      Range
      25299933..25302476 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_125702.4 → NP_201113.2  2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_201113.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q67ZB6, Q680P2, Q9FML5
      UniProtKB/TrEMBL
      A0A5S9YGS4, A0A654GDI4
      Conserved Domains (1) summary
      cl21464
      Location:22 → 270
      cupin_like; Conserved domain found in cupin and related proteins
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q67ZB6.1

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