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Gene Annotation

Shows the current gene functional description, GO annotations, and KEGG cross-references. Functional annotations retain the source reference; direct Arabidopsis/rice sequence hits are shown separately.

Examples TkA01G624900 LXL04_000258 Reference examples LXL04_039733 TkAUNG001940

Search Results

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Gene IDTkA03G484360
Query referenceTK1151
LocationChr03:121189538-121190777 (+)
DescriptionSimilar to REF6: Lysine-specific demethylase REF6 (Arabidopsis thaliana OX%3D3702)
Annotation source assemblyGCA_047496595.1_OSU_TarKok_2.0

Functional annotation source: OH1004 · LXL04_031920 · GCA_047496595.1_OSU_TarKok_2.0. These OH1004 annotations are retrieved through ID mapping; the Arabidopsis/rice table below uses protein alignments from the query reference.

This query returns 37 GO annotations and 2 KEGG gene cross-references from the OH1004 annotation record. The download is scoped to this query; these records do not establish KEGG pathway membership.

Arabidopsis / Rice Reference Genes and Papers

Papers describe Arabidopsis or rice reference genes. Functional links to rubber dandelion are based on protein alignments from the queried assembly.

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g48430 Histone demethylase that demethylates 'Lys-27' (H3K27me) of histone H3, thus acting as a positive regulator of gene expression.
Divergent roles of a pair of homologous jumonji/zinc-finger-class transcription factor proteins in the regulation of Arabidopsis flowering time.2004 · DOI: 10.1105/tpc.104.025353
Modulation of brassinosteroid-regulated gene expression by Jumonji domain-containing proteins ELF6 and REF6 in Arabidopsis.2008 · DOI: 10.1073/pnas.0802254105
Arabidopsis REF6 is a histone H3 lysine 27 demethylase.2011 · DOI: 10.1038/ng.854
Nuclear factor Y-mediated H3K27me3 demethylation of the SOC1 locus orchestrates flowering responses of Arabidopsis.2014 · DOI: 10.1038/ncomms5601
Concerted genomic targeting of H3K27 demethylase REF6 and chromatin-remodeling ATPase BRM in Arabidopsis.2016 · DOI: 10.1038/ng.3555
REF6 recognizes a specific DNA sequence to demethylate H3K27me3 and regulate organ boundary formation in Arabidopsis.2016 · DOI: 10.1038/ng.3556
An H3K27me3 demethylase-HSFA2 regulatory loop orchestrates transgenerational thermomemory in Arabidopsis.2019 · DOI: 10.1038/s41422-019-0145-8
DNA methylation repels targeting of Arabidopsis REF6.2019 · DOI: 10.1038/s41467-019-10026-1
Epigenetic silencing of a multifunctional plant stress regulator.2019 · DOI: 10.7554/elife.47835
Crystal structures of REF6 and its complex with DNA reveal diverse recognition mechanisms.2020 · DOI: 10.1038/s41421-020-0150-6
Dehydroabietinal promotes flowering time and plant defense in Arabidopsis via the autonomous pathway genes FLOWERING LOCUS D, FVE, and RELATIVE OF EARLY FLOWERING 6.2020 · DOI: 10.1093/jxb/eraa232
The H3K27me3 Demethylase RELATIVE OF EARLY FLOWERING6 Suppresses Seed Dormancy by Inducing Abscisic Acid Catabolism.2020 · DOI: 10.1104/pp.20.01255
A new role for histone demethylases in the maintenance of plant genome integrity.2020 · DOI: 10.7554/elife.58533

Rice

Reference gene IDPossible functionPapers / DOI
Os01g0907400 Histone demethylase that demethylates 'Lys-27' (H3K27me) of histone H3 with a specific activity for H3K27me3 and H3K27me2.
Jumonji C domain protein JMJ705-mediated removal of histone H3 lysine 27 trimethylation is involved in defense-related gene activation in rice.2013 · DOI: 10.1105/tpc.113.118802

GO / KEGG

These GO/KEGG records retain the OH1004 annotation source and original transfer evidence/coverage. Their source-species scope differs from the direct Arabidopsis/rice alignment table.

TypeIDNameNamespaceEvidenceSource
GOGO:0006338chromatin remodelingBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IBA:GO_CentralUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0006351DNA-templated transcriptionBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IEA:UniProtKB-KWUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0006355regulation of DNA-templated transcriptionBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IDA:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0006952defense responseBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=3; identity=48.298; coverage=55.837; evalue=3.84e-172; UniProt GO evidence=IEA:UniProtKB-KWUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0009408response to heatBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IMP:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0009612response to mechanical stimulusBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IEP:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0009627systemic acquired resistanceBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IMP:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0009737response to abscisic acidBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IEP:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0009738abscisic acid-activated signaling pathwayBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IEA:UniProtKB-KWUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0009741response to brassinosteroidBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IMP:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0009826unidimensional cell growthBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IMP:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0009873ethylene-activated signaling pathwayBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IMP:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0010104regulation of ethylene-activated signaling pathwayBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IMP:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0010182sugar mediated signaling pathwayBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=TAS:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0010228vegetative to reproductive phase transition of meristemBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IMP:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0010286heat acclimationBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IEP:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0010468regulation of gene expressionBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IBA:GO_CentralUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0010628positive regulation of gene expressionBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IMP:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0040010positive regulation of growth rateBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=3; identity=48.298; coverage=55.837; evalue=3.84e-172; UniProt GO evidence=IMP:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0040029epigenetic regulation of gene expressionBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IDA:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0045815transcription initiation-coupled chromatin remodelingBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=3; identity=48.298; coverage=55.837; evalue=3.84e-172; UniProt GO evidence=IDA:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0046345abscisic acid catabolic processBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IMP:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0048366leaf developmentBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IMP:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0048838release of seed from dormancyBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IMP:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0051260protein homooligomerizationBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IDA:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0097355protein localization to heterochromatinBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IDA:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:1901333positive regulation of lateral root developmentBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IMP:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:1904629response to diterpeneBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IMP:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:2000028regulation of photoperiodism, floweringBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IMP:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0000785chromatinCellular ComponentSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IBA:GO_CentralUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0005634nucleusCellular ComponentSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IDA:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0031011Ino80 complexCellular ComponentSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=TAS:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0008270zinc ion bindingMolecular FunctionSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IEA:UniProtKB-KWUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0034647histone H3K4me/H3K4me2/H3K4me3 demethylase activityMolecular FunctionSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IBA:GO_CentralUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0042803protein homodimerization activityMolecular FunctionSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IDA:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0043565sequence-specific DNA bindingMolecular FunctionSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IDA:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0071558histone H3K27me2/H3K27me3 demethylase activityMolecular FunctionSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0; UniProt GO evidence=IDA:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
KEGGath:AT3G48430KEGG gene cross-reference from reviewed UniProt hit; pathway name pendingSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=46.968; coverage=88.054; evalue=0.0UniProtKB/Swiss-Prot DAT 2026 current_release
KEGGdosa:Os01g0907400KEGG gene cross-reference from reviewed UniProt hit; pathway name pendingSwiss-Prot reviewed homolog transfer; hit_rank=3; identity=48.298; coverage=55.837; evalue=3.84e-172UniProtKB/Swiss-Prot DAT 2026 current_release