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_009204`
Query reference	OH1004
Location	Chr02:120394911-120395685 (+)
Description	Similar to DCL4: Endoribonuclease Dicer homolog 4 (Oryza sativa subsp. japonica OX%3D39947)
Annotation source assembly	GCA_047496595.1_OSU_TarKok_2.0

Functional annotation source: OH1004 · LXL04_009204 · GCA_047496595.1_OSU_TarKok_2.0.

This query returns 35 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
`At5g20320`	Ribonuclease (RNase) III involved in RNA-mediated post- transcriptional gene silencing (PTGS).	Partially redundant functions of Arabidopsis DICER-like enzymes and a role for DCL4 in producing trans-acting siRNAs.2005 · DOI: 10.1016/j.cub.2005.07.024 DICER-LIKE 4 functions in trans-acting small interfering RNA biogenesis and vegetative phase change in Arabidopsis thaliana.2005 · DOI: 10.1073/pnas.0506426102 A pathway for the biogenesis of trans-acting siRNAs in Arabidopsis.2005 · DOI: 10.1101/gad.1352605 DICER-LIKE 4 is required for RNA interference and produces the 21-nucleotide small interfering RNA component of the plant cell-to-cell silencing signal.2005 · DOI: 10.1038/ng1675 DRB4-dependent TAS3 trans-acting siRNAs control leaf morphology through AGO7.2006 · DOI: 10.1016/j.cub.2006.03.035 An antagonistic function for Arabidopsis DCL2 in development and a new function for DCL4 in generating viral siRNAs.2006 · DOI: 10.1038/sj.emboj.7601217 Suppression of antiviral silencing by cucumber mosaic virus 2b protein in Arabidopsis is associated with drastically reduced accumulation of three classes of viral small interfering RNAs.2007 · DOI: 10.1105/tpc.106.047449 Transitivity in Arabidopsis can be primed, requires the redundant action of the antiviral Dicer-like 4 and Dicer-like 2, and is compromised by viral-encoded suppressor proteins.2007 · DOI: 10.1261/rna.541307 A novel class of bacteria-induced small RNAs in Arabidopsis.2007 · DOI: 10.1101/gad.1595107 Arabidopsis DRB4, AGO1, AGO7, and RDR6 participate in a DCL4-initiated antiviral RNA silencing pathway negatively regulated by DCL1.2008 · DOI: 10.1073/pnas.0805760105
`At1g80650`	Ribonuclease 3-like protein 1.	No verified direct reference in this release
`At1g01040`	Ribonuclease (RNase) III involved in RNA-mediated post- transcriptional gene silencing (PTGS).	Specific interactions between Dicer-like proteins and HYL1/DRB-family dsRNA-binding proteins in Arabidopsis thaliana.2005 · DOI: 10.1007/s11103-004-6853-5 Partially redundant functions of Arabidopsis DICER-like enzymes and a role for DCL4 in producing trans-acting siRNAs.2005 · DOI: 10.1016/j.cub.2005.07.024 The interaction between DCL1 and HYL1 is important for efficient and precise processing of pri-miRNA in plant microRNA biogenesis.2006 · DOI: 10.1261/rna.2146906 A novel class of bacteria-induced small RNAs in Arabidopsis.2007 · DOI: 10.1101/gad.1595107 The RNA-binding proteins HYL1 and SE promote accurate in vitro processing of pri-miRNA by DCL1.2008 · DOI: 10.1073/pnas.0803356105 Arabidopsis DRB4, AGO1, AGO7, and RDR6 participate in a DCL4-initiated antiviral RNA silencing pathway negatively regulated by DCL1.2008 · DOI: 10.1073/pnas.0805760105

Rice

Reference gene ID	Possible function	Papers / DOI
`Os04g0509300`	Involved in the RNA silencing pathway.	The small interfering RNA production pathway is required for shoot meristem initiation in rice.2007 · DOI: 10.1073/pnas.0704339104 Oryza sativa dicer-like4 reveals a key role for small interfering RNA silencing in plant development.2007 · DOI: 10.1105/tpc.107.052209
`Os03g0121800`	Involved in the RNA silencing pathway.	Loss of function of OsDCL1 affects microRNA accumulation and causes developmental defects in rice.2005 · DOI: 10.1104/pp.105.063420 Genome-wide analysis for discovery of rice microRNAs reveals natural antisense microRNAs (nat-miRNAs).2008 · DOI: 10.1073/pnas.0708743105

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:0000911	cytokinesis by cell plate formation	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=35.294; coverage=50.37; evalue=2.99e-06; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0006353	DNA-templated transcription termination	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=42.708; coverage=71.111; evalue=5.46e-15; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0006364	rRNA processing	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=35.294; coverage=50.37; evalue=2.99e-06; UniProt GO evidence=IEA:InterPro	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0006396	RNA processing	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=35.294; coverage=50.37; evalue=2.99e-06; UniProt GO evidence=ISS:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0009616	RNAi-mediated antiviral immune response	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=42.708; coverage=71.111; evalue=5.46e-15; UniProt GO evidence=IGI:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0009880	embryonic pattern specification	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=35.294; coverage=50.37; evalue=2.99e-06; 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=5; identity=35.294; coverage=50.37; evalue=2.99e-06; UniProt GO evidence=TAS:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0009944	polarity specification of adaxial/abaxial axis	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.65; coverage=91.111; evalue=1.37e-18; UniProt GO evidence=IMP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0010050	vegetative phase change	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=42.708; coverage=71.111; evalue=5.46e-15; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0010228	vegetative to reproductive phase transition of meristem	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=35.294; coverage=50.37; evalue=2.99e-06; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0010267	ta-siRNA processing	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.65; coverage=91.111; evalue=1.37e-18; UniProt GO evidence=IDA:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0010492	maintenance of shoot apical meristem identity	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.65; coverage=91.111; evalue=1.37e-18; UniProt GO evidence=IMP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0010599	lsiRNA processing	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=42.708; coverage=71.111; evalue=5.46e-15; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0030422	siRNA processing	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.65; coverage=91.111; evalue=1.37e-18; UniProt GO evidence=IBA:GO_Central	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0031053	primary miRNA processing	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=35.294; coverage=50.37; evalue=2.99e-06; UniProt GO evidence=TAS:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0035196	miRNA processing	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=4; identity=32.955; coverage=65.185; evalue=7.67e-08; UniProt GO evidence=IMP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0035279	miRNA-mediated gene silencing by mRNA destabilization	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=35.294; coverage=50.37; evalue=2.99e-06; UniProt GO evidence=IMP:TAIR	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=42.708; coverage=71.111; evalue=5.46e-15; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0048317	seed morphogenesis	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=35.294; coverage=50.37; evalue=2.99e-06; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0048608	reproductive structure development	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.65; coverage=91.111; evalue=1.37e-18; UniProt GO evidence=IMP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0051214	RNAi-mediated antiviral immunity against RNA virus	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=42.708; coverage=71.111; evalue=5.46e-15; UniProt GO evidence=IGI:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0051607	defense response to virus	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=42.708; coverage=71.111; evalue=5.46e-15; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:2000034	regulation of seed maturation	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=35.294; coverage=50.37; evalue=2.99e-06; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0005634	nucleus	Cellular Component	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.65; coverage=91.111; evalue=1.37e-18; UniProt GO evidence=IBA:GO_Central	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0005737	cytoplasm	Cellular Component	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.65; coverage=91.111; evalue=1.37e-18; UniProt GO evidence=IBA:GO_Central	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0005829	cytosol	Cellular Component	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=42.708; coverage=71.111; evalue=5.46e-15; UniProt GO evidence=HDA:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0010445	nuclear dicing body	Cellular Component	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=35.294; coverage=50.37; evalue=2.99e-06; UniProt GO evidence=IDA:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0036464	cytoplasmic ribonucleoprotein granule	Cellular Component	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=42.708; coverage=71.111; evalue=5.46e-15; UniProt GO evidence=IDA:FlyBase	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0003677	DNA binding	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=35.294; coverage=50.37; evalue=2.99e-06; UniProt GO evidence=IDA:DisProt	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0003723	RNA binding	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.65; coverage=91.111; evalue=1.37e-18; UniProt GO evidence=IBA:GO_Central	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0003725	double-stranded RNA binding	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=35.294; coverage=50.37; evalue=2.99e-06; UniProt GO evidence=IDA:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0004386	helicase activity	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.65; coverage=91.111; evalue=1.37e-18; UniProt GO evidence=IEA:UniProtKB-KW	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0004525	ribonuclease III activity	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.65; coverage=91.111; evalue=1.37e-18; UniProt GO evidence=IBA:GO_Central	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0005524	ATP binding	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.65; coverage=91.111; evalue=1.37e-18; UniProt GO evidence=IEA:UniProtKB-KW	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0046872	metal ion binding	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.65; coverage=91.111; evalue=1.37e-18; UniProt GO evidence=IEA:UniProtKB-KW	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	ath:AT1G01040	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=35.294; coverage=50.37; evalue=2.99e-06	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	ath:AT1G80650	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=3; identity=50.0; coverage=59.259; evalue=5.71e-15	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	ath:AT5G20320	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=42.708; coverage=71.111; evalue=5.46e-15	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	dosa:Os03g0121800	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=4; identity=32.955; coverage=65.185; evalue=7.67e-08	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	dosa:Os04g0509300	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.65; coverage=91.111; evalue=1.37e-18	UniProtKB/Swiss-Prot DAT 2026 current_release