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GSE43616: Time-course of wild-type Arabidopsis leaf
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Results for AT3G47500
Z-value: 0.92
Transcription factors associated with AT3G47500
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT3G47500
|
AT3G47500 | cycling DOF factor 3 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| CDF3 | arTal_v1_Chr3_-_17506124_17506124 | 0.31 | 1.1e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr3_+_15983199_15983199 Show fit | 4.72 |
AT3G44300.1
|
nitrilase 2 |
|
| arTal_v1_Chr1_+_30150897_30151006 Show fit | 4.09 |
AT1G80160.3
AT1G80160.1 AT1G80160.2 |
Lactoylglutathione lyase / glyoxalase I family protein |
|
| arTal_v1_Chr2_+_18641563_18641563 Show fit | 3.52 |
AT2G45210.1
|
SAUR-like auxin-responsive protein family |
|
| arTal_v1_Chr4_+_8908763_8908879 Show fit | 3.43 |
AT4G15610.1
AT4G15610.2 |
Uncharacterized protein family (UPF0497) |
|
| arTal_v1_Chr5_+_16290386_16290386 Show fit | 3.29 |
AT5G40690.1
|
histone-lysine N-methyltransferase trithorax-like protein |
|
| arTal_v1_Chr3_+_5234457_5234457 Show fit | 3.28 |
AT3G15500.1
|
NAC domain containing protein 3 |
|
| arTal_v1_Chr1_-_30053936_30053936 Show fit | 3.26 |
AT1G79900.1
|
Mitochondrial substrate carrier family protein |
|
| arTal_v1_Chr1_+_5820080_5820080 Show fit | 3.21 |
AT1G17020.1
|
senescence-related gene 1 |
|
| arTal_v1_Chr5_-_216773_216773 Show fit | 2.95 |
AT5G01550.1
|
lectin receptor kinase a4.1 |
|
| arTal_v1_Chr4_-_7026224_7026224 Show fit | 2.93 |
AT4G11650.1
|
osmotin 34 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT3G47500
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 27.2 | GO:0071456 | cellular response to decreased oxygen levels(GO:0036294) cellular response to oxygen levels(GO:0071453) cellular response to hypoxia(GO:0071456) |
| 0.2 | 15.4 | GO:0010150 | leaf senescence(GO:0010150) |
| 0.0 | 11.5 | GO:0016567 | protein ubiquitination(GO:0016567) |
| 0.0 | 9.9 | GO:0006508 | proteolysis(GO:0006508) |
| 0.7 | 9.4 | GO:1900057 | positive regulation of leaf senescence(GO:1900057) |
| 0.0 | 8.5 | GO:0016311 | dephosphorylation(GO:0016311) |
| 1.7 | 8.3 | GO:0051091 | positive regulation of sequence-specific DNA binding transcription factor activity(GO:0051091) |
| 0.1 | 7.9 | GO:0019722 | calcium-mediated signaling(GO:0019722) |
| 0.2 | 7.7 | GO:0006749 | glutathione metabolic process(GO:0006749) |
| 0.0 | 7.2 | GO:0016192 | vesicle-mediated transport(GO:0016192) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 28.3 | GO:0005829 | cytosol(GO:0005829) |
| 0.0 | 19.9 | GO:0005774 | vacuolar membrane(GO:0005774) |
| 0.1 | 13.8 | GO:0000325 | plant-type vacuole(GO:0000325) |
| 0.1 | 7.6 | GO:0016607 | nuclear speck(GO:0016607) |
| 0.3 | 7.0 | GO:0010494 | cytoplasmic stress granule(GO:0010494) |
| 0.3 | 5.1 | GO:0005801 | cis-Golgi network(GO:0005801) |
| 0.0 | 5.0 | GO:0000151 | ubiquitin ligase complex(GO:0000151) |
| 0.1 | 4.3 | GO:0009504 | cell plate(GO:0009504) |
| 0.1 | 4.2 | GO:0031228 | integral component of Golgi membrane(GO:0030173) intrinsic component of Golgi membrane(GO:0031228) |
| 0.0 | 4.2 | GO:0005681 | spliceosomal complex(GO:0005681) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 22.4 | GO:0004842 | ubiquitin-protein transferase activity(GO:0004842) |
| 0.2 | 10.3 | GO:0003993 | acid phosphatase activity(GO:0003993) |
| 0.1 | 10.1 | GO:0046982 | protein heterodimerization activity(GO:0046982) |
| 0.1 | 9.8 | GO:0004722 | protein serine/threonine phosphatase activity(GO:0004722) |
| 0.1 | 7.7 | GO:0004364 | glutathione transferase activity(GO:0004364) |
| 1.1 | 7.5 | GO:0010279 | indole-3-acetic acid amido synthetase activity(GO:0010279) |
| 0.1 | 7.5 | GO:0061631 | ubiquitin conjugating enzyme activity(GO:0061631) |
| 0.4 | 6.6 | GO:0003978 | UDP-glucose 4-epimerase activity(GO:0003978) |
| 0.1 | 5.8 | GO:0001228 | transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding(GO:0001228) |
| 0.9 | 5.6 | GO:0080109 | indole-3-acetonitrile nitrile hydratase activity(GO:0080109) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 1.5 | PID ECADHERIN NASCENT AJ PATHWAY | E-cadherin signaling in the nascent adherens junction |
| 0.3 | 1.5 | PID S1P S1P1 PATHWAY | S1P1 pathway |
| 0.3 | 1.5 | PID PLK1 PATHWAY | PLK1 signaling events |
| 0.3 | 1.3 | PID CIRCADIAN PATHWAY | Circadian rhythm pathway |
| 0.2 | 1.1 | NABA ECM GLYCOPROTEINS | Genes encoding structural ECM glycoproteins |
| 0.2 | 0.5 | SIG PIP3 SIGNALING IN CARDIAC MYOCTES | Genes related to PIP3 signaling in cardiac myocytes |
| 0.1 | 0.4 | PID P73PATHWAY | p73 transcription factor network |
| 0.0 | 0.4 | PID ERBB1 DOWNSTREAM PATHWAY | ErbB1 downstream signaling |
| 0.0 | 0.3 | PID MTOR 4PATHWAY | mTOR signaling pathway |
| 0.1 | 0.2 | ST ADRENERGIC | Adrenergic Pathway |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 4.2 | REACTOME ABC FAMILY PROTEINS MEDIATED TRANSPORT | Genes involved in ABC-family proteins mediated transport |
| 0.7 | 3.5 | REACTOME RECYCLING OF BILE ACIDS AND SALTS | Genes involved in Recycling of bile acids and salts |
| 0.5 | 2.1 | REACTOME CITRIC ACID CYCLE TCA CYCLE | Genes involved in Citric acid cycle (TCA cycle) |
| 0.4 | 1.3 | REACTOME HDL MEDIATED LIPID TRANSPORT | Genes involved in HDL-mediated lipid transport |
| 0.3 | 1.3 | REACTOME BMAL1 CLOCK NPAS2 ACTIVATES CIRCADIAN EXPRESSION | Genes involved in BMAL1:CLOCK/NPAS2 Activates Circadian Expression |
| 0.2 | 0.9 | REACTOME LOSS OF NLP FROM MITOTIC CENTROSOMES | Genes involved in Loss of Nlp from mitotic centrosomes |
| 0.2 | 0.8 | REACTOME PEROXISOMAL LIPID METABOLISM | Genes involved in Peroxisomal lipid metabolism |
| 0.1 | 0.4 | REACTOME PI METABOLISM | Genes involved in PI Metabolism |
| 0.1 | 0.4 | REACTOME INTERFERON SIGNALING | Genes involved in Interferon Signaling |
| 0.0 | 0.4 | REACTOME METABOLISM OF LIPIDS AND LIPOPROTEINS | Genes involved in Metabolism of lipids and lipoproteins |