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 ID	`LXL04_012568`
Query reference	OH1004
Location	Chr03:14766711-14770482 (+)
Description	Similar to ELF6: Probable lysine-specific demethylase ELF6 (Arabidopsis thaliana OX%3D3702)
Annotation source assembly	GCA_047496595.1_OSU_TarKok_2.0

Functional annotation source: OH1004 · LXL04_012568 · GCA_047496595.1_OSU_TarKok_2.0.

This query returns 19 GO annotations and 3 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.

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g04240`	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 Repression of FLOWERING LOCUS T chromatin by functionally redundant histone H3 lysine 4 demethylases in Arabidopsis.2009 · DOI: 10.1371/journal.pone.0008033 Epigenetic reprogramming that prevents transgenerational inheritance of the vernalized state.2014 · DOI: 10.1038/nature13722 A new role for histone demethylases in the maintenance of plant genome integrity.2020 · DOI: 10.7554/elife.58533
`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
`At5g46910`	Histone demethylase that demethylates 'Lys-27' (H3K27me) of histone H3 with a specific activity for H3K27me3 and involved in the regulation of gene expression.	The Arabidopsis H3K27me3 demethylase JUMONJI 13 is a temperature and photoperiod dependent flowering repressor.2019 · DOI: 10.1038/s41467-019-09310-x

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0151300`	Histone demethylase that demethylates 'Lys-4' (H3K4me) of histone H3.	Se14, encoding a JmjC domain-containing protein, plays key roles in long-day suppression of rice flowering through the demethylation of H3K4me3 of RFT1.2014 · DOI: 10.1371/journal.pone.0096064
`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.

Type	ID	Name	Namespace	Evidence	Source
GO	GO:0006338	chromatin remodeling	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=55.882; coverage=75.825; evalue=0.0; UniProt GO evidence=IBA:GO_Central	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0006351	DNA-templated transcription	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=55.882; coverage=75.825; evalue=0.0; UniProt GO evidence=IEA:UniProtKB-KW	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0006355	regulation of DNA-templated transcription	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=55.882; coverage=75.825; evalue=0.0; UniProt GO evidence=TAS:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0009741	response to brassinosteroid	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=55.882; coverage=75.825; evalue=0.0; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0009826	unidimensional cell growth	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=55.882; coverage=75.825; evalue=0.0; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0009908	flower development	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=3; identity=50.31; coverage=57.627; evalue=0.0; UniProt GO evidence=IEA:UniProtKB-KW	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0010219	regulation of vernalization response	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=55.882; coverage=75.825; evalue=0.0; UniProt GO evidence=IMP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0010468	regulation of gene expression	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=55.882; coverage=75.825; evalue=0.0; UniProt GO evidence=IBA:GO_Central	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0010628	positive regulation of gene expression	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=55.882; coverage=75.825; evalue=0.0; UniProt GO evidence=IMP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0040029	epigenetic regulation of gene expression	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=55.882; coverage=75.825; evalue=0.0; UniProt GO evidence=IMP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0045814	negative regulation of gene expression, epigenetic	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=3; identity=50.31; coverage=57.627; evalue=0.0; UniProt GO evidence=IMP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0048577	negative regulation of short-day photoperiodism, flowering	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=55.882; coverage=75.825; evalue=0.0; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0048579	negative regulation of long-day photoperiodism, flowering	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=55.882; coverage=75.825; evalue=0.0; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0000785	chromatin	Cellular Component	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=55.882; coverage=75.825; evalue=0.0; UniProt GO evidence=IBA:GO_Central	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0005634	nucleus	Cellular Component	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=55.882; coverage=75.825; evalue=0.0; UniProt GO evidence=IDA:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0008270	zinc ion binding	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=55.882; coverage=75.825; evalue=0.0; UniProt GO evidence=IEA:UniProtKB-KW	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0032452	histone demethylase activity	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=3; identity=50.31; coverage=57.627; evalue=0.0; UniProt GO evidence=IMP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0034647	histone H3K4me/H3K4me2/H3K4me3 demethylase activity	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=55.882; coverage=75.825; evalue=0.0; UniProt GO evidence=IBA:GO_Central	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0071558	histone H3K27me2/H3K27me3 demethylase activity	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=55.882; coverage=75.825; evalue=0.0; UniProt GO evidence=IDA:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	ath:AT5G04240	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=55.882; coverage=75.825; evalue=0.0	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	dosa:Os03g0151300	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=3; identity=50.31; coverage=57.627; evalue=0.0	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	osa:9268736	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=3; identity=50.31; coverage=57.627; evalue=0.0	UniProtKB/Swiss-Prot DAT 2026 current_release