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    Transcription factor jumonji (jmjC) domain-containing protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 827933, updated on 18-Sep-2024

    Summary

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    Official Full Name
    Transcription factor jumonji (jmjC) domain-containing protein
    Primary source
    TAIR:AT4G00990
    Locus tag
    AT4G00990
    See related
    Araport:AT4G00990
    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
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    Genomic context

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    Location:
    chromosome: 4
    Exon count:
    14
    Sequence:
    Chromosome: 4; NC_003075.7 (426847..431862)

    Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene tRNA-Gln Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene Ubiquitin-like superfamily protein Neighboring gene cyclic nucleotide-gated channel 13 Neighboring gene helicase domain-containing protein / IBR domain-containing protein / zinc finger protein-like protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003075.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. JMJ27, an Arabidopsis H3K9 histone demethylase, modulates defense against Pseudomonas syringae and flowering time. Dutta A, et al. Plant J, 2017 Sep. PMID 28650521
    2. JMJ27-mediated histone H3K9 demethylation positively regulates drought-stress responses in Arabidopsis. Wang Q, et al. New Phytol, 2021 Oct. PMID 34197643
    3. CrY2H-seq: a massively multiplexed assay for deep-coverage interactome mapping. Wanamaker SA, et al. Nat Methods, 2017 Aug. PMID 28650476, Free PMC Article
    4. Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana. Mayer K, et al. Nature, 1999 Dec 16. PMID 10617198

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. JMJ27-mediated histone H3K9 demethylation positively regulates drought-stress responses in Arabidopsis.
      Title: JMJ27-mediated histone H3K9 demethylation positively regulates drought-stress responses in Arabidopsis.
    2. The results indicate that JMJ27 functions as a histone demethylase to modulate both physiological (defense) and developmental (flowering time) processes in Arabidopsis. [JMJ27]
      Title: JMJ27, an Arabidopsis H3K9 histone demethylase, modulates defense against Pseudomonas syringae and flowering time.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_001340293.1
    NM_116327.5

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables histone H3K9 demethylase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables histone H3K9 demethylase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K9me/H3K9me2 demethylase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within defense response to bacterium IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within_positive_effect epigenetic regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in epigenetic regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within_positive_effect positive regulation of response to water deprivation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of photoperiodism, flowering IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within_positive_effect regulation of stomatal closure IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in response to bacterium IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in response to water deprivation IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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
    Transcription factor jumonji (jmjC) domain-containing protein
    NP_192008.3
    • Transcription factor jumonji (jmjC) domain-containing protein; FUNCTIONS IN: sequence-specific DNA binding transcription factor activity, zinc ion binding; EXPRESSED IN: 20 plant structures; EXPRESSED DURING: 8 growth stages; CONTAINS InterPro DOMAIN/s: Transcription factor jumonji/aspartyl beta-hydroxylase (InterPro:IPR003347), Zinc finger, RING-type (InterPro:IPR001841), Transcription factor jumonji (InterPro:IPR013129); BEST Arabidopsis thaliana protein match is: Transcription factor jumonji (jmjC) domain-containing protein (TAIR:AT1G11950.1); Has 966 Blast hits to 671 proteins in 113 species: Archae - 0; Bacteria - 8; Metazoa - 538; Fungi - 54; Plants - 301; Viruses - 0; Other Eukaryotes - 65 (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_003075.7 Reference assembly

      Range
      426847..431862
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001340292.1 → NP_001328650.1  Transcription factor jumonji (jmjC) domain-containing protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8B5A8, A0A5S9XPI1, A0A654FKS0

    2. NM_116327.5 → NP_192008.3  Transcription factor jumonji (jmjC) domain-containing protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_192008.3

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q8VYB9, Q9SV29
      UniProtKB/TrEMBL
      A0A5S9XPI1, A0A654FKS0
      Conserved Domains (3) summary
      smart00558
      Location:487 → 560
      JmjC; A domain family that is part of the cupin metalloenzyme superfamily
      pfam10497
      Location:76 → 138
      zf-4CXXC_R1; Zinc-finger domain of monoamine-oxidase A repressor R1
      cl21464
      Location:683 → 781
      cupin_like; Conserved domain found in cupin and related proteins

    3. NM_001340293.1 → NP_001328649.1  Transcription factor jumonji (jmjC) domain-containing protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8B5A7, A0A5S9XPI1, A0A654FKS0
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8VYB9.1

    Gene LinkOut

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