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_022535`
Query reference	OH1004
Location	Chr05:669834-672551 (-)
Description	Similar to LHY: Protein LHY (Arabidopsis thaliana OX%3D3702)
Annotation source assembly	GCA_047496595.1_OSU_TarKok_2.0

Functional annotation source: OH1004 · LXL04_022535 · GCA_047496595.1_OSU_TarKok_2.0.

This query returns 20 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.

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g01060`	Transcription factor involved in the circadian clock.	No verified direct reference in this release
`At2g46830`	Transcription factor involved in the circadian clock and in the phytochrome regulation.	Reciprocal regulation between TOC1 and LHY/CCA1 within the Arabidopsis circadian clock.2001 · DOI: 10.1126/science.1061320 Critical role for CCA1 and LHY in maintaining circadian rhythmicity in Arabidopsis.2002 · DOI: 10.1016/s0960-9822(02)00815-1 LHY and CCA1 are partially redundant genes required to maintain circadian rhythms in Arabidopsis.2002 · DOI: 10.1016/s1534-5807(02)00170-3 The circadian clock in Arabidopsis roots is a simplified slave version of the clock in shoots.2008 · DOI: 10.1126/science.1161403 CIRCADIAN CLOCK ASSOCIATED1 and LATE ELONGATED HYPOCOTYL function synergistically in the circadian clock of Arabidopsis.2009 · DOI: 10.1104/pp.108.133272 Posttranslational regulation of CIRCADIAN CLOCK ASSOCIATED1 in the circadian oscillator of Arabidopsis.2009 · DOI: 10.1104/pp.109.137414 FBH1 affects warm temperature responses in the Arabidopsis circadian clock.2014 · DOI: 10.1073/pnas.1416666111 Diurnal regulation of SDG2 and JMJ14 by circadian clock oscillators orchestrates histone modification rhythms in Arabidopsis.2019 · DOI: 10.1186/s13059-019-1777-1 Constitutive expression of the CIRCADIAN CLOCK ASSOCIATED 1 (CCA1) gene disrupts circadian rhythms and suppresses its own expression.1998 · DOI: 10.1016/s0092-8674(00)81464-6
`At5g37260`	Positive regulator for cold-responsive gene expression and cold tolerance.	Constitutive expression of CIR1 (RVE2) affects several circadian-regulated processes and seed germination in Arabidopsis.2007 · DOI: 10.1111/j.1365-313x.2007.03156.x A DEAD box RNA helicase is critical for pre-mRNA splicing, cold-responsive gene regulation, and cold tolerance in Arabidopsis.2013 · DOI: 10.1105/tpc.112.108340

Rice

Reference gene ID	Possible function	Papers / DOI
`Os08g0157600`	Transcription factor involved in the regulation of tiller growth and panicle development.	The Rice Circadian Clock Regulates Tiller Growth and Panicle Development Through Strigolactone Signaling and Sugar Sensing.2020 · DOI: 10.1105/tpc.20.00289 Rice CIRCADIAN CLOCK ASSOCIATED 1 transcriptionally regulates ABA signaling to confer multiple abiotic stress tolerance.2022 · DOI: 10.1093/plphys/kiac196

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:0006351	DNA-templated transcription	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.28; coverage=125.341; evalue=1.46e-80; 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=40.28; coverage=125.341; evalue=1.46e-80; UniProt GO evidence=TAS:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0007623	circadian rhythm	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.28; coverage=125.341; evalue=1.46e-80; UniProt GO evidence=IGI:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0009408	response to heat	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=39.839; coverage=120.858; evalue=1.9e-74; UniProt GO evidence=IEP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0009409	response to cold	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.28; coverage=125.341; evalue=1.46e-80; UniProt GO evidence=IGI:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0010378	temperature compensation of the circadian clock	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=39.839; coverage=120.858; evalue=1.9e-74; 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=2; identity=39.839; coverage=120.858; evalue=1.9e-74; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0010597	green leaf volatile biosynthetic process	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=3; identity=87.156; coverage=21.248; evalue=2.06e-47; UniProt GO evidence=IMP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0042752	regulation of circadian rhythm	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.28; coverage=125.341; evalue=1.46e-80; UniProt GO evidence=IMP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0042754	negative regulation of circadian rhythm	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.28; coverage=125.341; evalue=1.46e-80; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0043254	regulation of protein-containing complex assembly	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=39.839; coverage=120.858; evalue=1.9e-74; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0045892	negative regulation of DNA-templated transcription	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=39.839; coverage=120.858; evalue=1.9e-74; UniProt GO evidence=IMP:TAIR	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=2; identity=39.839; coverage=120.858; evalue=1.9e-74; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0048574	long-day photoperiodism, flowering	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.28; coverage=125.341; evalue=1.46e-80; UniProt GO evidence=IGI:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0005634	nucleus	Cellular Component	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.28; coverage=125.341; evalue=1.46e-80; UniProt GO evidence=ISM:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0000976	transcription cis-regulatory region binding	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.28; coverage=125.341; evalue=1.46e-80; UniProt GO evidence=IDA:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0000987	cis-regulatory region sequence-specific DNA binding	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=39.839; coverage=120.858; evalue=1.9e-74; UniProt GO evidence=IDA:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0003677	DNA binding	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=39.839; coverage=120.858; evalue=1.9e-74; UniProt GO evidence=IDA:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0003700	DNA-binding transcription factor activity	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.28; coverage=125.341; evalue=1.46e-80; UniProt GO evidence=IDA:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0043565	sequence-specific DNA binding	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=39.839; coverage=120.858; evalue=1.9e-74; UniProt GO evidence=IDA:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	ath:AT1G01060	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=40.28; coverage=125.341; evalue=1.46e-80	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	ath:AT2G46830	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=39.839; coverage=120.858; evalue=1.9e-74	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	dosa:Os08g0157600	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=81.731; coverage=20.273; evalue=1.27e-40	UniProtKB/Swiss-Prot DAT 2026 current_release