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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT3G50410
Z-value: 1.37
Transcription factors associated with AT3G50410
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT3G50410
|
AT3G50410 | OBF binding protein 1 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| OBP1 | arTal_v1_Chr3_+_18709613_18709613 | 0.30 | 3.0e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr2_-_17712290_17712330 Show fit | 4.07 |
AT2G42540.2
AT2G42540.4 AT2G42540.1 AT2G42540.3 |
cold-regulated 15a |
|
| arTal_v1_Chr2_+_538250_538250 Show fit | 2.81 |
AT2G02120.1
|
Scorpion toxin-like knottin superfamily protein |
|
| arTal_v1_Chr5_+_21240717_21240717 Show fit | 2.62 |
AT5G52310.1
|
low-temperature-responsive protein 78 (LTI78) / desiccation-responsive protein 29A (RD29A) |
|
| arTal_v1_Chr1_+_3019639_3019639 Show fit | 2.18 |
AT1G09350.1
|
galactinol synthase 3 |
|
| arTal_v1_Chr5_-_17199793_17199910 Show fit | 2.15 |
AT5G42900.1
AT5G42900.3 AT5G42900.2 |
cold regulated protein 27 |
|
| arTal_v1_Chr1_+_3020221_3020221 Show fit | 2.03 |
AT1G09350.2
|
galactinol synthase 3 |
|
| arTal_v1_Chr2_+_19245591_19245684 Show fit | 2.00 |
AT2G46830.1
AT2G46830.2 |
circadian clock associated 1 |
|
| arTal_v1_Chr2_-_6493512_6493512 Show fit | 1.99 |
AT2G15020.1
|
hypothetical protein |
|
| arTal_v1_Chr3_-_489467_489467 Show fit | 1.98 |
AT3G02380.1
|
CONSTANS-like 2 |
|
| arTal_v1_Chr5_+_5206156_5206156 Show fit | 1.90 |
AT5G15950.2
|
Adenosylmethionine decarboxylase family protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT3G50410
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 9.7 | GO:0006412 | translation(GO:0006412) |
| 0.2 | 8.0 | GO:0006012 | galactose metabolic process(GO:0006012) |
| 0.1 | 6.3 | GO:0009631 | cold acclimation(GO:0009631) |
| 0.4 | 6.1 | GO:0010100 | negative regulation of photomorphogenesis(GO:0010100) |
| 0.7 | 5.9 | GO:0009819 | drought recovery(GO:0009819) |
| 0.9 | 5.6 | GO:0042754 | negative regulation of circadian rhythm(GO:0042754) |
| 0.1 | 5.5 | GO:0048511 | circadian rhythm(GO:0007623) rhythmic process(GO:0048511) |
| 0.1 | 5.5 | GO:0009658 | chloroplast organization(GO:0009658) |
| 0.5 | 5.0 | GO:0009608 | response to symbiont(GO:0009608) |
| 0.1 | 5.0 | GO:0042752 | regulation of circadian rhythm(GO:0042752) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 70.5 | GO:0005829 | cytosol(GO:0005829) |
| 0.1 | 57.6 | GO:0044434 | chloroplast part(GO:0044434) |
| 0.1 | 10.7 | GO:0000790 | nuclear chromatin(GO:0000790) |
| 0.1 | 8.6 | GO:0009707 | chloroplast outer membrane(GO:0009707) |
| 0.0 | 7.8 | GO:0005730 | nucleolus(GO:0005730) |
| 0.0 | 6.9 | GO:0005802 | trans-Golgi network(GO:0005802) |
| 0.1 | 6.7 | GO:0031978 | chloroplast thylakoid lumen(GO:0009543) plastid thylakoid lumen(GO:0031978) |
| 0.1 | 6.1 | GO:0031969 | chloroplast membrane(GO:0031969) |
| 0.0 | 5.3 | GO:0022625 | cytosolic large ribosomal subunit(GO:0022625) |
| 0.1 | 5.0 | GO:0042646 | plastid nucleoid(GO:0042646) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 34.1 | GO:0001071 | nucleic acid binding transcription factor activity(GO:0001071) transcription factor activity, sequence-specific DNA binding(GO:0003700) |
| 0.1 | 11.0 | GO:0000978 | RNA polymerase II core promoter proximal region sequence-specific DNA binding(GO:0000978) |
| 0.8 | 7.6 | GO:0047216 | inositol 3-alpha-galactosyltransferase activity(GO:0047216) |
| 0.1 | 7.1 | GO:0003724 | RNA helicase activity(GO:0003724) |
| 0.0 | 5.5 | GO:0043492 | hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances(GO:0016820) ATPase activity, coupled to transmembrane movement of substances(GO:0042626) ATPase activity, coupled to movement of substances(GO:0043492) |
| 0.9 | 5.4 | GO:0019904 | protein domain specific binding(GO:0019904) |
| 0.1 | 5.0 | GO:0102483 | scopolin beta-glucosidase activity(GO:0102483) |
| 0.0 | 5.0 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 1.2 | 4.8 | GO:0004350 | glutamate 5-kinase activity(GO:0004349) glutamate-5-semialdehyde dehydrogenase activity(GO:0004350) |
| 0.5 | 4.8 | GO:0009882 | blue light photoreceptor activity(GO:0009882) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 1.7 | PID CIRCADIAN PATHWAY | Circadian rhythm pathway |
| 0.4 | 1.2 | PID HNF3B PATHWAY | FOXA2 and FOXA3 transcription factor networks |
| 0.2 | 1.0 | PID AP1 PATHWAY | AP-1 transcription factor network |
| 0.3 | 0.8 | PID RAS PATHWAY | Regulation of Ras family activation |
| 0.2 | 0.7 | SIG CHEMOTAXIS | Genes related to chemotaxis |
| 0.2 | 0.7 | PID IL4 2PATHWAY | IL4-mediated signaling events |
| 0.1 | 0.7 | PID TRKR PATHWAY | Neurotrophic factor-mediated Trk receptor signaling |
| 0.1 | 0.7 | PID HIF1 TFPATHWAY | HIF-1-alpha transcription factor network |
| 0.1 | 0.6 | PID SMAD2 3NUCLEAR PATHWAY | Regulation of nuclear SMAD2/3 signaling |
| 0.2 | 0.5 | ST ADRENERGIC | Adrenergic Pathway |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.5 | 2.1 | REACTOME RECRUITMENT OF MITOTIC CENTROSOME PROTEINS AND COMPLEXES | Genes involved in Recruitment of mitotic centrosome proteins and complexes |
| 0.1 | 1.9 | REACTOME NONSENSE MEDIATED DECAY ENHANCED BY THE EXON JUNCTION COMPLEX | Genes involved in Nonsense Mediated Decay Enhanced by the Exon Junction Complex |
| 0.4 | 1.5 | REACTOME SYNTHESIS OF BILE ACIDS AND BILE SALTS VIA 7ALPHA HYDROXYCHOLESTEROL | Genes involved in Synthesis of bile acids and bile salts via 7alpha-hydroxycholesterol |
| 0.3 | 1.3 | REACTOME BMAL1 CLOCK NPAS2 ACTIVATES CIRCADIAN EXPRESSION | Genes involved in BMAL1:CLOCK/NPAS2 Activates Circadian Expression |
| 0.2 | 1.2 | REACTOME LIPID DIGESTION MOBILIZATION AND TRANSPORT | Genes involved in Lipid digestion, mobilization, and transport |
| 0.3 | 1.0 | REACTOME NRAGE SIGNALS DEATH THROUGH JNK | Genes involved in NRAGE signals death through JNK |
| 0.2 | 1.0 | REACTOME SLC MEDIATED TRANSMEMBRANE TRANSPORT | Genes involved in SLC-mediated transmembrane transport |
| 0.3 | 0.9 | REACTOME TRNA AMINOACYLATION | Genes involved in tRNA Aminoacylation |
| 0.3 | 0.9 | REACTOME ABACAVIR TRANSPORT AND METABOLISM | Genes involved in Abacavir transport and metabolism |
| 0.1 | 0.9 | REACTOME INTERFERON SIGNALING | Genes involved in Interferon Signaling |