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GSE43616: Time-course of wild-type Arabidopsis leaf
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Results for AT3G50260
Z-value: 1.50
Transcription factors associated with AT3G50260
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT3G50260
|
AT3G50260 | cooperatively regulated by ethylene and jasmonate 1 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| CEJ1 | arTal_v1_Chr3_+_18634546_18634546 | 0.88 | 7.5e-10 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr3_+_15983199_15983199 Show fit | 7.18 |
AT3G44300.1
|
nitrilase 2 |
|
| arTal_v1_Chr1_+_30150897_30151006 Show fit | 5.98 |
AT1G80160.3
AT1G80160.1 AT1G80160.2 |
Lactoylglutathione lyase / glyoxalase I family protein |
|
| arTal_v1_Chr3_-_6258426_6258426 Show fit | 5.88 |
AT3G18250.1
|
Putative membrane lipoprotein |
|
| arTal_v1_Chr1_+_20387058_20387058 Show fit | 5.73 |
AT1G54575.1
|
hypothetical protein |
|
| arTal_v1_Chr3_-_20769324_20769410 Show fit | 5.64 |
AT3G55970.2
AT3G55970.1 |
jasmonate-regulated gene 21 |
|
| arTal_v1_Chr3_+_18873911_18873911 Show fit | 5.60 |
AT3G50770.1
|
calmodulin-like 41 |
|
| arTal_v1_Chr1_-_27548282_27548282 Show fit | 5.59 |
AT1G73260.1
|
kunitz trypsin inhibitor 1 |
|
| arTal_v1_Chr1_+_20386809_20386809 Show fit | 5.58 |
AT1G54575.2
|
hypothetical protein |
|
| arTal_v1_Chr2_-_18781973_18781973 Show fit | 5.45 |
AT2G45570.1
|
cytochrome P450, family 76, subfamily C, polypeptide 2 |
|
| arTal_v1_Chr4_+_17855637_17855637 Show fit | 5.42 |
AT4G37990.1
|
cinnamyl alcohol dehydrogenase 8 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT3G50260
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 39.5 | GO:0032446 | protein modification by small protein conjugation(GO:0032446) |
| 0.2 | 35.8 | GO:0036294 | cellular response to decreased oxygen levels(GO:0036294) cellular response to oxygen levels(GO:0071453) cellular response to hypoxia(GO:0071456) |
| 0.7 | 29.7 | GO:0043562 | cellular response to nitrogen levels(GO:0043562) |
| 0.1 | 24.5 | GO:0030163 | protein catabolic process(GO:0030163) |
| 0.5 | 22.3 | GO:2000022 | regulation of jasmonic acid mediated signaling pathway(GO:2000022) |
| 0.3 | 20.8 | GO:0009615 | response to virus(GO:0009615) |
| 0.2 | 19.3 | GO:0010200 | response to chitin(GO:0010200) |
| 0.1 | 18.7 | GO:0000398 | mRNA splicing, via spliceosome(GO:0000398) |
| 0.4 | 18.0 | GO:0046283 | anthocyanin-containing compound metabolic process(GO:0046283) |
| 0.4 | 17.8 | GO:0009788 | negative regulation of abscisic acid-activated signaling pathway(GO:0009788) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 106.8 | GO:0005634 | nucleus(GO:0005634) |
| 0.1 | 38.8 | GO:0005774 | vacuolar membrane(GO:0005774) |
| 0.1 | 20.4 | GO:0000325 | plant-type vacuole(GO:0000325) |
| 0.2 | 17.8 | GO:0000139 | Golgi membrane(GO:0000139) |
| 0.2 | 16.9 | GO:0005681 | spliceosomal complex(GO:0005681) |
| 0.1 | 15.8 | GO:0005789 | endoplasmic reticulum membrane(GO:0005789) |
| 0.1 | 15.7 | GO:0044217 | host(GO:0018995) host cell part(GO:0033643) host intracellular part(GO:0033646) host intracellular organelle(GO:0033647) host intracellular membrane-bounded organelle(GO:0033648) host cell nucleus(GO:0042025) intracellular region of host(GO:0043656) host cell(GO:0043657) other organism(GO:0044215) other organism cell(GO:0044216) other organism part(GO:0044217) |
| 0.1 | 15.4 | GO:0005777 | peroxisome(GO:0005777) microbody(GO:0042579) |
| 0.1 | 13.7 | GO:0000790 | nuclear chromatin(GO:0000790) |
| 0.3 | 12.1 | GO:0000323 | lytic vacuole(GO:0000323) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 54.0 | GO:0004842 | ubiquitin-protein transferase activity(GO:0004842) |
| 0.2 | 36.6 | GO:0061630 | ubiquitin protein ligase activity(GO:0061630) |
| 0.2 | 30.2 | GO:0000978 | RNA polymerase II core promoter proximal region sequence-specific DNA binding(GO:0000978) |
| 0.1 | 29.0 | GO:0001067 | regulatory region DNA binding(GO:0000975) transcription regulatory region sequence-specific DNA binding(GO:0000976) regulatory region nucleic acid binding(GO:0001067) transcription regulatory region DNA binding(GO:0044212) |
| 0.3 | 21.4 | GO:0004197 | cysteine-type endopeptidase activity(GO:0004197) |
| 0.2 | 21.0 | GO:0004722 | protein serine/threonine phosphatase activity(GO:0004722) |
| 0.2 | 18.6 | GO:0019900 | kinase binding(GO:0019900) |
| 0.3 | 17.1 | GO:0005096 | GTPase activator activity(GO:0005096) |
| 0.2 | 15.7 | GO:0046982 | protein heterodimerization activity(GO:0046982) |
| 2.2 | 15.1 | GO:0010279 | indole-3-acetic acid amido synthetase activity(GO:0010279) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.8 | 5.3 | NABA ECM GLYCOPROTEINS | Genes encoding structural ECM glycoproteins |
| 0.4 | 4.3 | PID RAC1 PATHWAY | RAC1 signaling pathway |
| 0.6 | 2.9 | PID CIRCADIAN PATHWAY | Circadian rhythm pathway |
| 0.8 | 2.3 | SIG CHEMOTAXIS | Genes related to chemotaxis |
| 0.7 | 2.1 | SIG PIP3 SIGNALING IN CARDIAC MYOCTES | Genes related to PIP3 signaling in cardiac myocytes |
| 0.3 | 1.9 | PID MTOR 4PATHWAY | mTOR signaling pathway |
| 0.6 | 1.7 | PID IL12 2PATHWAY | IL12-mediated signaling events |
| 0.3 | 1.5 | PID REG GR PATHWAY | Glucocorticoid receptor regulatory network |
| 0.4 | 1.3 | PID TAP63 PATHWAY | Validated transcriptional targets of TAp63 isoforms |
| 0.5 | 1.0 | PID TRKR PATHWAY | Neurotrophic factor-mediated Trk receptor signaling |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 5.3 | REACTOME ABC FAMILY PROTEINS MEDIATED TRANSPORT | Genes involved in ABC-family proteins mediated transport |
| 0.8 | 4.6 | REACTOME GLYCEROPHOSPHOLIPID BIOSYNTHESIS | Genes involved in Glycerophospholipid biosynthesis |
| 0.6 | 4.5 | REACTOME METABOLISM OF AMINO ACIDS AND DERIVATIVES | Genes involved in Metabolism of amino acids and derivatives |
| 1.0 | 4.1 | REACTOME SYNTHESIS OF BILE ACIDS AND BILE SALTS | Genes involved in Synthesis of bile acids and bile salts |
| 0.3 | 3.3 | REACTOME FATTY ACID TRIACYLGLYCEROL AND KETONE BODY METABOLISM | Genes involved in Fatty acid, triacylglycerol, and ketone body metabolism |
| 0.8 | 3.2 | REACTOME MITOCHONDRIAL PROTEIN IMPORT | Genes involved in Mitochondrial Protein Import |
| 0.4 | 3.2 | REACTOME SIGNALING BY RHO GTPASES | Genes involved in Signaling by Rho GTPases |
| 0.7 | 2.9 | REACTOME BMAL1 CLOCK NPAS2 ACTIVATES CIRCADIAN EXPRESSION | Genes involved in BMAL1:CLOCK/NPAS2 Activates Circadian Expression |
| 0.4 | 2.6 | REACTOME RESOLUTION OF AP SITES VIA THE MULTIPLE NUCLEOTIDE PATCH REPLACEMENT PATHWAY | Genes involved in Resolution of AP sites via the multiple-nucleotide patch replacement pathway |
| 0.2 | 2.2 | REACTOME RNA POL II TRANSCRIPTION | Genes involved in RNA Polymerase II Transcription |