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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT5G56840
Z-value: 2.97
Transcription factors associated with AT5G56840
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT5G56840
|
AT5G56840 | myb-like transcription factor family protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| AT5G56840 | arTal_v1_Chr5_+_22980638_22980638 | -0.15 | 6.0e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr4_+_9698940_9698940 Show fit | 5.44 |
AT4G17340.1
|
tonoplast intrinsic protein 2;2 |
|
| arTal_v1_Chr5_+_6833564_6833659 Show fit | 5.38 |
AT5G20250.2
AT5G20250.1 AT5G20250.4 AT5G20250.3 |
Raffinose synthase family protein |
|
| arTal_v1_Chr4_+_6826587_6826587 Show fit | 5.13 |
AT4G11190.1
|
Disease resistance-responsive (dirigent-like protein) family protein |
|
| arTal_v1_Chr4_-_14827211_14827211 Show fit | 4.71 |
AT4G30280.1
|
xyloglucan endotransglucosylase/hydrolase 18 |
|
| arTal_v1_Chr1_-_4975705_4975705 Show fit | 4.37 |
AT1G14540.1
|
Peroxidase superfamily protein |
|
| arTal_v1_Chr5_-_19036938_19036938 Show fit | 4.17 |
AT5G46890.1
|
Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein |
|
| arTal_v1_Chr1_-_7391603_7391603 Show fit | 3.93 |
AT1G21110.1
|
O-methyltransferase family protein |
|
| arTal_v1_Chr5_-_19040456_19040456 Show fit | 3.61 |
AT5G46900.1
|
Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein |
|
| arTal_v1_Chr5_-_15378416_15378416 Show fit | 3.58 |
AT5G38410.3
AT5G38410.2 |
Ribulose bisphosphate carboxylase (small chain) family protein |
|
| arTal_v1_Chr3_+_20354351_20354351 Show fit | 3.58 |
AT3G54940.3
AT3G54940.2 |
Papain family cysteine protease |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT5G56840
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 14.5 | GO:0010200 | response to chitin(GO:0010200) |
| 0.1 | 14.0 | GO:0071456 | cellular response to hypoxia(GO:0071456) |
| 0.2 | 10.4 | GO:0010411 | xyloglucan metabolic process(GO:0010411) |
| 1.6 | 6.3 | GO:0006097 | glyoxylate cycle(GO:0006097) |
| 0.2 | 6.1 | GO:0010214 | seed coat development(GO:0010214) |
| 0.6 | 6.0 | GO:0050691 | regulation of defense response to virus by host(GO:0050691) |
| 0.3 | 5.5 | GO:0071450 | removal of superoxide radicals(GO:0019430) cellular response to oxygen radical(GO:0071450) cellular response to superoxide(GO:0071451) |
| 0.3 | 5.5 | GO:0030388 | fructose 1,6-bisphosphate metabolic process(GO:0030388) |
| 1.1 | 5.3 | GO:0019310 | inositol catabolic process(GO:0019310) |
| 0.1 | 5.3 | GO:0045168 | cell-cell signaling involved in cell fate commitment(GO:0045168) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 84.8 | GO:0005576 | extracellular region(GO:0005576) |
| 0.1 | 38.4 | GO:0031225 | anchored component of membrane(GO:0031225) |
| 0.2 | 4.4 | GO:0012511 | monolayer-surrounded lipid storage body(GO:0012511) |
| 0.9 | 2.7 | GO:0009514 | glyoxysome(GO:0009514) |
| 0.6 | 2.5 | GO:0009317 | acetyl-CoA carboxylase complex(GO:0009317) |
| 0.1 | 2.5 | GO:0005811 | lipid particle(GO:0005811) |
| 0.8 | 2.4 | GO:0070382 | exocytic vesicle(GO:0070382) |
| 0.6 | 2.4 | GO:0016461 | unconventional myosin complex(GO:0016461) |
| 0.2 | 2.4 | GO:0048226 | Casparian strip(GO:0048226) |
| 0.0 | 2.4 | GO:0005887 | integral component of plasma membrane(GO:0005887) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 11.0 | GO:0008171 | O-methyltransferase activity(GO:0008171) |
| 1.6 | 9.7 | GO:0016984 | ribulose-bisphosphate carboxylase activity(GO:0016984) |
| 0.1 | 7.1 | GO:0004190 | aspartic-type endopeptidase activity(GO:0004190) |
| 0.1 | 6.4 | GO:0046910 | pectinesterase inhibitor activity(GO:0046910) |
| 0.1 | 6.4 | GO:0015144 | carbohydrate transmembrane transporter activity(GO:0015144) |
| 0.9 | 6.3 | GO:0047274 | galactinol-sucrose galactosyltransferase activity(GO:0047274) |
| 0.1 | 6.3 | GO:0001228 | transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding(GO:0001228) |
| 0.3 | 5.9 | GO:0102338 | 3-oxo-arachidoyl-CoA synthase activity(GO:0102336) 3-oxo-cerotoyl-CoA synthase activity(GO:0102337) 3-oxo-lignoceronyl-CoA synthase activity(GO:0102338) |
| 0.1 | 5.8 | GO:0033612 | receptor serine/threonine kinase binding(GO:0033612) |
| 0.4 | 5.5 | GO:0004332 | fructose-bisphosphate aldolase activity(GO:0004332) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.6 | 3.4 | NABA MATRISOME ASSOCIATED | Ensemble of genes encoding ECM-associated proteins including ECM-affilaited proteins, ECM regulators and secreted factors |
| 0.4 | 2.9 | NABA ECM GLYCOPROTEINS | Genes encoding structural ECM glycoproteins |
| 0.7 | 2.0 | PID REG GR PATHWAY | Glucocorticoid receptor regulatory network |
| 0.2 | 1.9 | PID E2F PATHWAY | E2F transcription factor network |
| 0.6 | 1.8 | SA CASPASE CASCADE | Apoptosis is mediated by caspases, cysteine proteases arranged in a proteolytic cascade. |
| 0.6 | 1.8 | PID IL12 2PATHWAY | IL12-mediated signaling events |
| 0.2 | 0.9 | ST ERK1 ERK2 MAPK PATHWAY | ERK1/ERK2 MAPK Pathway |
| 0.2 | 0.8 | PID SMAD2 3NUCLEAR PATHWAY | Regulation of nuclear SMAD2/3 signaling |
| 0.1 | 0.3 | PID ARF 3PATHWAY | Arf1 pathway |
| 0.1 | 0.3 | PID P73PATHWAY | p73 transcription factor network |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.5 | 3.3 | REACTOME G0 AND EARLY G1 | Genes involved in G0 and Early G1 |
| 0.7 | 2.9 | REACTOME GLUCONEOGENESIS | Genes involved in Gluconeogenesis |
| 0.3 | 2.3 | REACTOME CHEMOKINE RECEPTORS BIND CHEMOKINES | Genes involved in Chemokine receptors bind chemokines |
| 0.6 | 1.8 | REACTOME APOPTOSIS INDUCED DNA FRAGMENTATION | Genes involved in Apoptosis induced DNA fragmentation |
| 0.3 | 1.7 | REACTOME MHC CLASS II ANTIGEN PRESENTATION | Genes involved in MHC class II antigen presentation |
| 0.1 | 1.1 | REACTOME CLASS I MHC MEDIATED ANTIGEN PROCESSING PRESENTATION | Genes involved in Class I MHC mediated antigen processing & presentation |
| 0.2 | 0.8 | REACTOME INNATE IMMUNE SYSTEM | Genes involved in Innate Immune System |
| 0.1 | 0.7 | REACTOME REMOVAL OF THE FLAP INTERMEDIATE FROM THE C STRAND | Genes involved in Removal of the Flap Intermediate from the C-strand |
| 0.1 | 0.7 | REACTOME REVERSIBLE HYDRATION OF CARBON DIOXIDE | Genes involved in Reversible Hydration of Carbon Dioxide |
| 0.2 | 0.5 | REACTOME REGULATION OF INSULIN SECRETION | Genes involved in Regulation of Insulin Secretion |