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JmjC domain protein JMJ24 [ Arabidopsis thaliana (thale cress) ]

Gene ID: 837427, updated on 18-Sep-2024

Summary

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Official Full Name
JmjC domain protein JMJ24
Primary source
TAIR:AT1G09060
Locus tag
AT1G09060
See related
Araport:AT1G09060
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
F7G19.7; F7G19_7
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Genomic context

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Location:
chromosome: 1
Exon count:
14
Sequence:
Chromosome: 1; NC_003070.9 (2921064..2925826, complement)

Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene nuclear factor Y, subunit B4 Neighboring gene arginine-glutamic acid dipeptide repeat protein Neighboring gene arginine-glutamic acid dipeptide repeat protein Neighboring gene soybean gene regulated by cold-2 Neighboring gene Heat shock protein 70 (Hsp 70) family protein

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003070.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. JMJ24 antagonizes histone H3K9 demethylase IBM1/JMJ25 function and interacts with RNAi pathways for gene silencing. Audonnet L, et al. Gene Expr Patterns, 2017 Nov. PMID 28400174
  2. A JUMONJI Protein with E3 Ligase and Histone H3 Binding Activities Affects Transposon Silencing in Arabidopsis. Kabelitz T, et al. Plant Physiol, 2016 May. PMID 26979329, Free PMC Article
  3. JMJ24 targets CHROMOMETHYLASE3 for proteasomal degradation in Arabidopsis. Deng S, et al. Genes Dev, 2016 Feb 1. PMID 26798133, Free PMC Article
  4. JMJ24 binds to RDR2 and is required for the basal level transcription of silenced loci in Arabidopsis. Deng S, et al. Plant J, 2015 Sep. PMID 26119694
  5. Arabidopsis J-protein J20 delivers the first enzyme of the plastidial isoprenoid pathway to protein quality control. Pulido P, et al. Plant Cell, 2013 Oct. PMID 24104567, Free PMC Article

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. JMJ24 has a role in transposon silencing by antagonizing H3K9me2 through locus-specific interactions.
    Title: A JUMONJI Protein with E3 Ligase and Histone H3 Binding Activities Affects Transposon Silencing in Arabidopsis.
  2. Results find that jmj24 mutations produced a number of developmental defects. The jmj24 mutations could complement defects of plant growth and gene expression caused by the ibm1 mutation. These data complement previous results and suggests JMJ24 may have a function that counteracts IBM1/ JMJ25 in gene expression and may be involved in different pathways of gene silencing.
    Title: JMJ24 antagonizes histone H3K9 demethylase IBM1/JMJ25 function and interacts with RNAi pathways for gene silencing.
  3. JMJ24, possesses ubiquitin E3 ligase activity and directly targets a DNA methyltransferase, CHROMOMETHYLASE 3 (CMT3), for proteasomal degradation to initiate destabilization of the heterochromatic state of endogenous silenced loci.
    Title: JMJ24 targets CHROMOMETHYLASE3 for proteasomal degradation in Arabidopsis.
  4. JMJ24 binds to RDR2 and is required for the basal level transcription of silenced loci in Arabidopsis.
    Title: JMJ24 binds to RDR2 and is required for the basal level transcription of silenced loci in Arabidopsis.
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

NM_001035930.1
NM_001331803.1
NM_100777.3
NM_202069.3

Gene Ontology Provided by TAIR

Function Evidence Code Pubs
NOT enables demethylase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables histone binding IDA
Inferred from Direct Assay
more info
 PubMed 
NOT enables iron ion binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein homodimerization activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables transcription cis-regulatory region binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables ubiquitin conjugating enzyme binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables ubiquitin protein ligase activity IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within epigenetic regulation of gene expression IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within epigenetic regulation of gene expression IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within heterochromatin formation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of DNA methylation-dependent heterochromatin formation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within positive regulation of gene expression IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within protein ubiquitination IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within regulation of regulatory ncRNA processing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
part_of Ino80 complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of Set1C/COMPASS complex 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
JmjC domain protein JMJ24
NP_001318961.1
  • Zinc finger, RING-type;Transcription factor jumonji/aspartyl beta-hydroxylase; FUNCTIONS IN: sequence-specific DNA binding transcription factor activity, zinc ion binding; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 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), WRC (InterPro:IPR014977), Cell division cycle-associated protein (InterPro:IPR018866); BEST Arabidopsis thaliana protein match is: Transcription factor jumonji (jmjC) domain-containing protein (TAIR:AT4G00990.1); 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).
NP_172380.2
  • Zinc finger, RING-type;Transcription factor jumonji/aspartyl beta-hydroxylase; FUNCTIONS IN: sequence-specific DNA binding transcription factor activity, zinc ion binding; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 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), WRC (InterPro:IPR014977), Cell division cycle-associated protein (InterPro:IPR018866); BEST Arabidopsis thaliana protein match is: Transcription factor jumonji (jmjC) domain-containing protein (TAIR:AT4G00990.1); Has 1115 Blast hits to 1061 proteins in 99 species: Archae - 0; Bacteria - 0; Metazoa - 398; Fungi - 30; Plants - 639; Viruses - 0; Other Eukaryotes - 48 (source: NCBI BLink).
NP_973798.1
  • Zinc finger, RING-type;Transcription factor jumonji/aspartyl beta-hydroxylase; FUNCTIONS IN: sequence-specific DNA binding transcription factor activity, zinc ion binding; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 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), WRC (InterPro:IPR014977), Cell division cycle-associated protein (InterPro:IPR018866); BEST Arabidopsis thaliana protein match is: Transcription factor jumonji (jmjC) domain-containing protein (TAIR:AT4G00990.1); 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_003070.9 Reference assembly

    Range
    2921064..2925826 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_100777.3 → NP_172380.2  JmjC domain protein JMJ24 [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_172380.2

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A178WLJ2
    Conserved Domains (4) summary
    smart00558
    Location:592 → 665
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam08879
    Location:25 → 65
    WRC; WRC
    pfam10497
    Location:202 → 263
    zf-4CXXC_R1; Zinc-finger domain of monoamine-oxidase A repressor R1
    cl21464
    Location:738 → 842
    cupin_like; Conserved domain found in cupin and related proteins

  2. NM_202069.3 → NP_973798.1  JmjC domain protein JMJ24 [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_973798.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A178WLJ2
    Conserved Domains (4) summary
    smart00558
    Location:592 → 665
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam08879
    Location:25 → 65
    WRC; WRC
    pfam10497
    Location:202 → 263
    zf-4CXXC_R1; Zinc-finger domain of monoamine-oxidase A repressor R1
    cl21464
    Location:738 → 842
    cupin_like; Conserved domain found in cupin and related proteins

  3. NM_001035930.1 → NP_001031007.1  JmjC domain protein JMJ24 [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_001031007.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    B9DFI4, B9DGQ5, C0SUU1, F4HZD1, O04024, Q0WLZ4
    UniProtKB/TrEMBL
    A0A178WJM2
    Conserved Domains (4) summary
    smart00558
    Location:606 → 679
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam08879
    Location:39 → 79
    WRC; WRC
    pfam10497
    Location:216 → 277
    zf-4CXXC_R1; Zinc-finger domain of monoamine-oxidase A repressor R1
    cl21464
    Location:752 → 856
    cupin_like; Conserved domain found in cupin and related proteins

  4. NM_001331803.1 → NP_001318961.1  JmjC domain protein JMJ24 [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    B9DFI4, B9DGQ5, C0SUU1, F4HZD1, O04024, Q0WLZ4
    UniProtKB/TrEMBL
    A0A178WJM2
Nucleotide Protein
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