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	`TkA03G340640`
Query reference	TK1151
Location	Chr03:83845150-83852696 (-)
Description	Similar to J2: MADS-box protein J2 (Solanum lycopersicum OX%3D4081)
Annotation source assembly	GCA_047496595.1_OSU_TarKok_2.0

Functional annotation source: OH1004 · LXL04_008732 · 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 14 GO annotations and 4 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
`At5g65080`	Transcription factor involved in the negative regulation of flowering time in short days, probably through the photoperiodic and vernalization pathways.	Analysis of the Arabidopsis MADS AFFECTING FLOWERING gene family: MAF2 prevents vernalization by short periods of cold.2003 · DOI: 10.1105/tpc.009506 The E2 ubiquitin-conjugating enzymes, AtUBC1 and AtUBC2, play redundant roles and are involved in activation of FLC expression and repression of flowering in Arabidopsis thaliana.2009 · DOI: 10.1111/j.1365-313x.2008.03684.x The Plant Homeo Domain finger protein, VIN3-LIKE 2, is necessary for photoperiod-mediated epigenetic regulation of the floral repressor, MAF5.2010 · DOI: 10.1073/pnas.1010834107 Role of VIN3-LIKE 2 in facultative photoperiodic flowering response in Arabidopsis.2010 · DOI: 10.4161/psb.5.12.14035 AGAMOUS-LIKE 6 is a floral promoter that negatively regulates the FLC/MAF clade genes and positively regulates FT in Arabidopsis.2011 · DOI: 10.1111/j.1365-313x.2010.04402.x HISTONE DEACETYLASE6 interacts with FLOWERING LOCUS D and regulates flowering in Arabidopsis.2011 · DOI: 10.1104/pp.111.174417 Arabidopsis trithorax-related3/SET domain GROUP2 is required for the winter-annual habit of Arabidopsis thaliana.2012 · DOI: 10.1093/pcp/pcs021
`At5g65060`	Probable transcription factor involved in the negative regulation of flowering time, probably through the photoperiodic and vernalization pathways; more efficient in cv.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0752800`	Probable transcription factor.	No verified direct reference in this release
`UniProt: P0C5B1`	Probable transcription factor.	No verified direct reference in this release

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=44.134; coverage=84.038; evalue=3.64e-39; UniProt GO evidence=IEA:UniProtKB-KW	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0006357	regulation of transcription by RNA polymerase II	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=44.134; coverage=84.038; evalue=3.64e-39; UniProt GO evidence=IBA:GO_Central	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0009631	cold acclimation	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=44.767; coverage=80.751; evalue=8.66e-37; UniProt GO evidence=IMP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0010048	vernalization response	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=44.767; coverage=80.751; evalue=8.66e-37; UniProt GO evidence=IEP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0010220	positive regulation of vernalization response	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=44.767; coverage=80.751; evalue=8.66e-37; UniProt GO evidence=IDA:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0010221	negative regulation of vernalization response	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=44.767; coverage=80.751; evalue=8.66e-37; UniProt GO evidence=IMP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0010582	floral meristem determinacy	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=42.286; coverage=82.16; evalue=1.53e-38; UniProt GO evidence=IBA:GO_Central	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=44.134; coverage=84.038; evalue=3.64e-39; UniProt GO evidence=IEA:InterPro	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0048440	carpel development	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=44.134; coverage=84.038; evalue=3.64e-39; UniProt GO evidence=IEA:UniProtKB-ARBA	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:2000028	regulation of photoperiodism, flowering	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=44.767; coverage=80.751; evalue=8.66e-37; UniProt GO evidence=IMP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0005634	nucleus	Cellular Component	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=44.134; coverage=84.038; evalue=3.64e-39; UniProt GO evidence=IEA:UniProtKB-SubCell	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0000978	RNA polymerase II cis-regulatory region sequence-specific DNA binding	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=44.134; coverage=84.038; evalue=3.64e-39; UniProt GO evidence=IBA:GO_Central	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0000981	DNA-binding transcription factor activity, RNA polymerase II-specific	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=44.134; coverage=84.038; evalue=3.64e-39; UniProt GO evidence=IBA:GO_Central	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0046983	protein dimerization activity	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=44.134; coverage=84.038; evalue=3.64e-39; UniProt GO evidence=IEA:InterPro	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	bdi:100842079	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=5; identity=44.767; coverage=80.751; evalue=8.66e-37	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	sly:101263981	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=44.134; coverage=84.038; evalue=3.64e-39	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	vvi:100232867	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=3; identity=44.271; coverage=90.141; evalue=2.43e-38	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	vvi:100232952	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=42.286; coverage=82.16; evalue=1.53e-38	UniProtKB/Swiss-Prot DAT 2026 current_release