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_013738`
Query reference	OH1004
Location	Chr03:35105370-35108944 (+)
Description	Similar to DDM1: ATP-dependent DNA helicase DDM1 (Arabidopsis thaliana OX%3D3702)
Annotation source assembly	GCA_047496595.1_OSU_TarKok_2.0

Functional annotation source: OH1004 · LXL04_013738 · GCA_047496595.1_OSU_TarKok_2.0.

This query returns 38 GO annotations and 5 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 ID	Possible function	Papers / DOI
`At5g66750`	DNA- or chromatin-stimulated ATPase that plays a role in formation, organization, stability and heritability of heterochromatin and thus regulates several physiological traits.	Maintenance of genomic methylation requires a SWI2/SNF2-like protein.1999 · DOI: 10.1038/8803 Maintenance of genomic imprinting at the Arabidopsis medea locus requires zygotic DDM1 activity.1999 · DOI: 10.1101/gad.13.22.2971 Silencing of retrotransposons in arabidopsis and reactivation by the ddm1 mutation.2000 · DOI: 10.1105/tpc.12.3.357 Release of epigenetic gene silencing by trans-acting mutations in Arabidopsis.1998 · DOI: 10.1073/pnas.95.2.632 Robertson's Mutator transposons in A. thaliana are regulated by the chromatin-remodeling gene Decrease in DNA Methylation (DDM1).2001 · DOI: 10.1101/gad.193701 Mobilization of transposons by a mutation abolishing full DNA methylation in Arabidopsis.2001 · DOI: 10.1038/35075612 Athila4 of Arabidopsis and Calypso of soybean define a lineage of endogenous plant retroviruses.2002 · DOI: 10.1101/gr.196001 Dependence of heterochromatic histone H3 methylation patterns on the Arabidopsis gene DDM1.2002 · DOI: 10.1126/science.1074950 Interplay between two epigenetic marks. DNA methylation and histone H3 lysine 9 methylation.2002 · DOI: 10.1016/s0960-9822(02)00976-4 Two regulatory levels of transcriptional gene silencing in Arabidopsis.2002 · DOI: 10.1073/pnas.202380499 Deficient in DNA methylation 1 (DDM1) defines a novel family of chromatin-remodeling factors.2003 · DOI: 10.1074/jbc.m209260200 DNA methylation controls histone H3 lysine 9 methylation and heterochromatin assembly in Arabidopsis.2002 · DOI: 10.1093/emboj/cdf657 Expression of Arabidopsis LINEs from two promoters.2002 · DOI: 10.1046/j.1365-313x.2002.01466.x Two means of transcriptional reactivation within heterochromatin.2003 · DOI: 10.1046/j.1365-313x.2003.01667.x Arabidopsis MET1 cytosine methyltransferase mutants.2003 · DOI: 10.1093/genetics/163.3.1109 Genomic localization of endogenous mobile CACTA family transposons in natural variants of Arabidopsis thaliana.2004 · DOI: 10.1007/s00438-003-0943-y Changes in 5S rDNA chromatin organization and transcription during heterochromatin establishment in Arabidopsis.2003 · DOI: 10.1105/tpc.017467 Distinct mechanisms determine transposon inheritance and methylation via small interfering RNA and histone modification.2003 · DOI: 10.1371/journal.pbio.0000067 Role of transposable elements in heterochromatin and epigenetic control.2004 · DOI: 10.1038/nature02651 Epigenetic control of CACTA transposon mobility in Arabidopsis thaliana.2004 · DOI: 10.1534/genetics.104.029637 Transcript profiling in Arabidopsis reveals complex responses to global inhibition of DNA methylation and histone deacetylation.2005 · DOI: 10.1074/jbc.m409053200 DDM1 binds Arabidopsis methyl-CpG binding domain proteins and affects their subnuclear localization.2005 · DOI: 10.1105/tpc.105.031567 DNA methylation increases throughout Arabidopsis development.2005 · DOI: 10.1007/s00425-005-1524-6 Epigenetic regulation of transcription in intermediate heterochromatin.2006 · DOI: 10.1038/sj.embor.7400835 Control of FWA gene silencing in Arabidopsis thaliana by SINE-related direct repeats.2007 · DOI: 10.1111/j.1365-313x.2006.02936.x Differential epigenetic regulation within an Arabidopsis retroposon family.2007 · DOI: 10.1534/genetics.107.071092 Heritable epigenetic mutation of a transposon-flanked Arabidopsis gene due to lack of the chromatin-remodeling factor DDM1.2007 · DOI: 10.1038/sj.emboj.7601788 Heterochromatic siRNAs and DDM1 independently silence aberrant 5S rDNA transcripts in Arabidopsis.2009 · DOI: 10.1371/journal.pone.0005932 Characterization of an Arabidopsis thaliana DNA hypomethylation mutant.1995 · DOI: 10.1093/nar/23.1.130 Arabidopsis thaliana DNA methylation mutants.1993 · DOI: 10.1126/science.8316832 Developmental abnormalities and epimutations associated with DNA hypomethylation mutations.1996 · DOI: 10.1073/pnas.93.22.12406 Genetic characterization of late-flowering traits induced by DNA hypomethylation mutation in Arabidopsis thaliana.1997 · DOI: 10.1046/j.1365-313x.1997.12061447.x Gene silencing and homology-dependent gene silencing in Arabidopsis: genetic modifiers and DNA methylation.1998 · DOI: 10.1093/genetics/149.2.651 The DNA methylation locus DDM1 is required for maintenance of gene silencing in Arabidopsis.1998 · DOI: 10.1101/gad.12.11.1714 Meiotically and mitotically stable inheritance of DNA hypomethylation induced by ddm1 mutation of Arabidopsis thaliana.1999 · DOI: 10.1093/genetics/151.2.831

Rice

No hit for this species in the current source table.

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:0000724	double-strand break repair via homologous recombination	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=39.581; coverage=107.417; evalue=2.56e-167; UniProt GO evidence=IDA:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0006302	double-strand break repair	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=39.581; coverage=107.417; evalue=2.56e-167; UniProt GO evidence=ISS:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0006338	chromatin remodeling	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=70.696; coverage=100.795; evalue=0.0; UniProt GO evidence=IMP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0006346	DNA methylation-dependent constitutive heterochromatin formation	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=70.696; coverage=100.795; evalue=0.0; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0006351	DNA-templated transcription	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=70.696; coverage=100.795; 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=5; identity=46.314; coverage=70.066; evalue=3.55e-151; UniProt GO evidence=IDA:ComplexPortal	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0009294	DNA-mediated transformation	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=70.696; coverage=100.795; evalue=0.0; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0031507	heterochromatin formation	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=70.696; coverage=100.795; evalue=0.0; UniProt GO evidence=IMP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0031508	pericentric heterochromatin formation	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=39.581; coverage=107.417; evalue=2.56e-167; UniProt GO evidence=ISS:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0032197	retrotransposition	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=70.696; coverage=100.795; evalue=0.0; UniProt GO evidence=IMP:TAIR	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=70.696; coverage=100.795; evalue=0.0; UniProt GO evidence=IMP:GO_Central	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0044027	negative regulation of gene expression via chromosomal CpG island methylation	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=39.581; coverage=107.417; evalue=2.56e-167; UniProt GO evidence=ISS:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0045893	positive regulation of DNA-templated transcription	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=46.314; coverage=70.066; evalue=3.55e-151; UniProt GO evidence=IMP:HGNC-UCL	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0045944	positive regulation of transcription by RNA polymerase II	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=70.696; coverage=100.795; evalue=0.0; UniProt GO evidence=IBA:GO_Central	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0051301	cell division	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=39.581; coverage=107.417; evalue=2.56e-167; UniProt GO evidence=IEA:UniProtKB-KW	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0141119	chromosomal DNA methylation maintenance following DNA replication	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=3; identity=39.95; coverage=106.093; evalue=5.4e-166; UniProt GO evidence=IMP:MGI	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:1990830	cellular response to leukemia inhibitory factor	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=3; identity=39.95; coverage=106.093; evalue=5.4e-166; UniProt GO evidence=IEP:MGI	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0000775	chromosome, centromeric region	Cellular Component	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=39.581; coverage=107.417; evalue=2.56e-167; UniProt GO evidence=ISS:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0000785	chromatin	Cellular Component	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=70.696; coverage=100.795; evalue=0.0; UniProt GO evidence=IBA:GO_Central	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0000786	nucleosome	Cellular Component	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=70.696; coverage=100.795; evalue=0.0; UniProt GO evidence=IDA:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0005634	nucleus	Cellular Component	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=70.696; coverage=100.795; evalue=0.0; UniProt GO evidence=ISM:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0005654	nucleoplasm	Cellular Component	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=46.314; coverage=70.066; evalue=3.55e-151; UniProt GO evidence=IDA:HPA	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0005721	pericentric heterochromatin	Cellular Component	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=39.581; coverage=107.417; evalue=2.56e-167; UniProt GO evidence=IDA:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0016589	NURF complex	Cellular Component	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=46.314; coverage=70.066; evalue=3.55e-151; UniProt GO evidence=IDA:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0035861	site of double-strand break	Cellular Component	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=39.581; coverage=107.417; evalue=2.56e-167; UniProt GO evidence=IDA:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0090537	CERF complex	Cellular Component	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=46.314; coverage=70.066; evalue=3.55e-151; UniProt GO evidence=IDA:MGI	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0003677	DNA binding	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=70.696; coverage=100.795; evalue=0.0; UniProt GO evidence=IBA:GO_Central	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0003682	chromatin binding	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=70.696; coverage=100.795; evalue=0.0; UniProt GO evidence=IBA:GO_Central	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0004386	helicase activity	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=39.581; coverage=107.417; evalue=2.56e-167; UniProt GO evidence=IEA:UniProtKB-KW	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0005524	ATP binding	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=70.696; coverage=100.795; evalue=0.0; UniProt GO evidence=IEA:UniProtKB-KW	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0016787	hydrolase activity	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=4; identity=44.908; coverage=79.338; evalue=1.6e-161; UniProt GO evidence=IEA:UniProtKB-KW	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0016887	ATP hydrolysis activity	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=70.696; coverage=100.795; evalue=0.0; UniProt GO evidence=IDA:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0031491	nucleosome binding	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=46.314; coverage=70.066; evalue=3.55e-151; UniProt GO evidence=IEA:InterPro	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0036310	ATP-dependent DNA/DNA annealing activity	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=46.314; coverage=70.066; evalue=3.55e-151; UniProt GO evidence=IDA:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0061629	RNA polymerase II-specific DNA-binding transcription factor binding	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=46.314; coverage=70.066; evalue=3.55e-151; UniProt GO evidence=IPI:ParkinsonsUK-UCL	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0140463	chromatin-protein adaptor activity	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=39.581; coverage=107.417; evalue=2.56e-167; UniProt GO evidence=IDA:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0140658	ATP-dependent chromatin remodeler activity	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=70.696; coverage=100.795; evalue=0.0; UniProt GO evidence=IDA:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0140750	nucleosome array spacer activity	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=70.696; coverage=100.795; evalue=0.0; UniProt GO evidence=IBA:GO_Central	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	ath:AT5G66750	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=70.696; coverage=100.795; evalue=0.0	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	hsa:3070	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=39.581; coverage=107.417; evalue=2.56e-167	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	hsa:6594	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=46.314; coverage=70.066; evalue=3.55e-151	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	mmu:15201	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=3; identity=39.95; coverage=106.093; evalue=5.4e-166	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	xla:446222	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=4; identity=44.908; coverage=79.338; evalue=1.6e-161	UniProtKB/Swiss-Prot DAT 2026 current_release