Gene omics information

Query gene ID At1g01060
Gene name LHY (LATE ELONGATED HYPOCOTYL)
Organism Arabidopsis thaliana


Co-expressed genes



As this page just shows up to 10 genes to the query, if you wish to have the complete list of co-expressed genes, click Gene/Probe ID.

VF%ileGene/Probe IDRepr.IDGene NameFunctional DescriptionS.X.H.G.Other DB
1.00100.0At1g01060839341LHY (LATE ELONGATED HYPOCOTYL)LHY encodes a myb-related putative transcription factor involved in circadian rhythm along with another myb transcription factor CCA1S.X.H.G.
0.8693.1At3g09600820117myb family transcription factorF:transcription factor activity, DNA binding;P:in 9 processes;C:chloroplast;PMOFS.X.H.G.
0.8089.8At2g46830819296CCA1 (CIRCADIAN CLOCK ASSOCIATED 1)Encodes a transcriptional repressor that performs overlapping functions with LHY in a regulatory feedback loop that is closely associated with the circadian oscillator of Arabidopsis. Binds to the evening element in the promoter of TOC1 and represses TOC1 transcription. CCA1 and LHY colocalize in the nucleus and form heterodimers in vivo. CCA1 and LHY function synergistically in regulating circadian rhythms of Arabidopsis.S.X.H.G.
0.6781.6At3g02380821298COL2 (constans-like 2)homologous to the flowering-time gene CONSTANS (CO) encoding zinc-finger proteinsS.X.H.G.
0.4457.2At3g54500824615-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMOFBS.X.H.G.
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Specifically expressed experiments



As this page just shows up to 10 assays to the query, if you wish to have the complete list of assays that the query gene/probe was specifically expressed, click here.
Std2 GX%ileGSM IDAssay NameGSE IDExperiment Title
159.799.9E-MEXP-1299-raw-cel-1519902498
97.299.9E-MEXP-1299-raw-cel-1519902871
92.799.9E-MEXP-1299-raw-cel-1519902780
80.599.9E-MEXP-1299-raw-cel-1519902558
76.999.9E-MEXP-1299-raw-cel-1519902698
72.899.9E-MEXP-1299-raw-cel-1519902620
37.199.7GSM318331EL_14DAS_2GSE12676Arabidopsis thaliana Ler developmental series
36.499.7GSM317624Apex_14DAS_2GSE12676Arabidopsis thaliana Ler developmental series
32.699.7E-MEXP-513-raw-cel-829814366
32.299.7GSM318622Apex_mir-319b_17DAS_1GSE12691Knockdown and overexpression of CIN-TCP genes
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Homologous genes



Paralogous genes



Click Gene ID to show a list of homologous genes.

HFEvBSGene IDRepr. IDGene NameFunctional descriptionC.G.S.X.Other DB
0.085e-1583At2g46830819296CCA1 (CIRCADIAN CLOCK ASSOCIATED 1)Encodes a transcriptional repressor that performs overlapping functions with LHY in a regulatory feedback loop that is closely associated with the circadian oscillator of Arabidopsis. Binds to the evening element in the promoter of TOC1 and represses TOC1 transcription. CCA1 and LHY colocalize in the nucleus and form heterodimers in vivo. CCA1 and LHY function synergistically in regulating circadian rhythms of Arabidopsis.C.G.S.X.
0.023e-448At1g75520843888SRS5 (SHI-RELATED SEQUENCE 5)A member of SHI gene family. Arabidopsis thaliana has ten members that encode proteins with a RING finger-like zinc finger motif. Despite being highly divergent in sequence, many of the SHI-related genes are partially redundant in function and synergistically promote gynoecium, stamen and leaf development in Arabidopsis.C.G.S.X.
0.012e-242At4g35310829685CPK5 (calmodulin-domain protein kinase 5)calmodulin-domain protein kinase CDPK isoform 5 (CPK5)C.G.S.X.
0.012e-138At5g54910835582DEAD/DEAH box helicase, putativeF:helicase activity, nucleic acid binding, ATP binding, ATP-dependent helicase activity;P:biological_process unknown;C:nucleolus;BOMFPAVC.G.S.X.
0.012e-138At5g49700835033DNA-binding protein-relatedF:unknown;P:biological_process unknown;C:unknown;PMBFC.G.S.X.
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Orthologous genes



Click Gene ID to show a list of orthologous genes.

HFEvBSSpeciesGene IDRepr. IDGene NameFunctional descriptionEvAGI codeArabidopsis gene nameC.G.S.X.Other DB
0.129e-859Glycine maxGmaAffx.42059.1.S1_atBM892355MYB transcription factor MYB173 /// MYB transcription factor MYB174-9e-10At5g17300myb family transcription factorC.G.S.X.
0.079e-21101Hordeum vulgareContig3873_atContig3873--3e-20At1g01060LHY (LATE ELONGATED HYPOCOTYL)C.G.S.X.
0.077e-31137Oryza sativaOs08g0157600AY452478.1-Myb, DNA-binding domain containing protein5e-31At1g01060LHY (LATE ELONGATED HYPOCOTYL)C.G.S.X.
0.111e-37159Populus trichocarpaPtpAffx.7997.1.S1_atBU868664hypothetical protein-2e-10At2g46830CCA1 (CIRCADIAN CLOCK ASSOCIATED 1)C.G.S.X.
0.021e-656Triticum aestivumTa.7524.1.A1_atBJ250276--6e-7At1g01060LHY (LATE ELONGATED HYPOCOTYL)C.G.S.X.
0.134e-1995Vitis vinifera1607032_s_atCB345316hypothetical protein LOC100250535-2e-18At1g01060LHY (LATE ELONGATED HYPOCOTYL)C.G.S.X.
0.063e-2099Zea maysZm.7073.2.A1_atAI600777--1e-2At5g37260RVE2 (REVEILLE 2)C.G.S.X.
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Biological processes



Click GO ID to show a list of genes that are associated with the GO ID.

ECCGO IDProcess Name
XGO:0048574A change from the vegetative to the reproductive phase as a result of detection of, or exposure to, a period of light that exceeds the critical day length. The critical day length varies between species. Although the term is long-day is used, most species actually respond to the duration of the night, so that the response will occur when a period of darkness falls short of the number of hours defined by 24 minus the critical day length.
XGO:0009723A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an ethylene (ethene) stimulus.
XGO:0009651A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating an increase or decrease in the concentration of salt (particularly but not exclusively sodium and chloride ions) in the environment.
XGO:0009733A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an auxin stimulus.
XGO:0009737A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an abscisic acid stimulus.
XGO:0009739A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a gibberellin stimulus.
XGO:0009751A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a salicylic acid stimulus.
XGO:0009753A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a jasmonic acid stimulus.
XGO:0046686A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a cadmium (Cd) ion stimulus.
SGO:0045449Any process that modulates the frequency, rate or extent of the synthesis of either RNA on a template of DNA or DNA on a template of RNA.
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Metabolic pathways



Click KaPPA-View ID to show a list of genes that are assigned to the KaPPA-View ID.

KaPPA-View IDLink to Kappa-ViewPathway Name



Click KEGG PATHWAY ID to show a list of genes that are assigned to the KEGG PATHWAY ID.

KEGG PATHWAY IDLink to KEGG PATHWAYPathway Name
04712Link to KEGG PATHWAYCircadian rhythm - plant
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