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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT5G60130
Z-value: 1.49
Transcription factors associated with AT5G60130
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT5G60130
|
AT5G60130 | AP2/B3-like transcriptional factor family protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| AT5G60130 | arTal_v1_Chr5_-_24213386_24213386 | 0.25 | 3.9e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr5_+_6833564_6833659 Show fit | 2.07 |
AT5G20250.2
AT5G20250.1 AT5G20250.4 AT5G20250.3 |
Raffinose synthase family protein |
|
| arTal_v1_Chr5_+_16441808_16441808 Show fit | 2.04 |
AT5G41080.2
|
PLC-like phosphodiesterases superfamily protein |
|
| arTal_v1_Chr5_+_16441655_16441655 Show fit | 2.02 |
AT5G41080.1
|
PLC-like phosphodiesterases superfamily protein |
|
| arTal_v1_Chr4_+_2449434_2449434 Show fit | 1.85 |
AT4G04840.1
|
methionine sulfoxide reductase B6 |
|
| arTal_v1_Chr1_-_7396773_7396823 Show fit | 1.69 |
AT1G21120.1
AT1G21120.2 |
O-methyltransferase family protein |
|
| arTal_v1_Chr1_-_4835089_4835089 Show fit | 1.63 |
AT1G14120.2
AT1G14120.1 AT1G14120.3 |
2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily protein |
|
| arTal_v1_Chr5_+_19434758_19434758 Show fit | 1.54 |
AT5G47990.1
|
cytochrome P450, family 705, subfamily A, polypeptide 5 |
|
| arTal_v1_Chr5_+_23187840_23187840 Show fit | 1.52 |
AT5G57220.1
|
cytochrome P450, family 81, subfamily F, polypeptide 2 |
|
| arTal_v1_Chr1_-_7388512_7388512 Show fit | 1.48 |
AT1G21100.1
|
O-methyltransferase family protein |
|
| arTal_v1_Chr1_-_8075037_8075037 Show fit | 1.46 |
AT1G22810.1
|
Integrase-type DNA-binding superfamily protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT5G60130
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 19.6 | GO:0010200 | response to chitin(GO:0010200) |
| 0.1 | 13.8 | GO:0071456 | cellular response to hypoxia(GO:0071456) |
| 0.2 | 6.2 | GO:0030091 | protein repair(GO:0030091) |
| 0.4 | 5.3 | GO:2000122 | negative regulation of stomatal complex development(GO:2000122) |
| 1.0 | 4.1 | GO:0046475 | glycerophospholipid catabolic process(GO:0046475) |
| 0.1 | 3.5 | GO:2000022 | regulation of jasmonic acid mediated signaling pathway(GO:2000022) |
| 0.6 | 3.4 | GO:0006567 | threonine catabolic process(GO:0006567) |
| 0.8 | 3.2 | GO:0080003 | thalianol metabolic process(GO:0080003) |
| 0.1 | 3.1 | GO:0045292 | mRNA cis splicing, via spliceosome(GO:0045292) |
| 0.0 | 2.9 | GO:0045490 | pectin catabolic process(GO:0045490) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 38.2 | GO:0005576 | extracellular region(GO:0005576) |
| 0.0 | 10.5 | GO:0031225 | anchored component of membrane(GO:0031225) |
| 0.1 | 5.2 | GO:0010319 | stromule(GO:0010319) |
| 0.2 | 2.3 | GO:0000326 | storage vacuole(GO:0000322) protein storage vacuole(GO:0000326) |
| 0.4 | 2.1 | GO:0035061 | interchromatin granule(GO:0035061) |
| 0.2 | 1.7 | GO:0048226 | Casparian strip(GO:0048226) |
| 0.1 | 1.7 | GO:0016324 | apical plasma membrane(GO:0016324) |
| 0.0 | 1.4 | GO:0031201 | SNARE complex(GO:0031201) |
| 0.1 | 1.1 | GO:0010005 | cortical microtubule, transverse to long axis(GO:0010005) |
| 0.0 | 0.9 | GO:0030173 | integral component of Golgi membrane(GO:0030173) intrinsic component of Golgi membrane(GO:0031228) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.6 | 6.1 | GO:0033743 | peptide-methionine (R)-S-oxide reductase activity(GO:0033743) |
| 0.2 | 5.5 | GO:0004089 | carbonate dehydratase activity(GO:0004089) |
| 0.1 | 4.9 | GO:0008171 | O-methyltransferase activity(GO:0008171) |
| 0.3 | 4.5 | GO:0008889 | glycerophosphodiester phosphodiesterase activity(GO:0008889) |
| 0.1 | 4.4 | GO:1901476 | carbohydrate transporter activity(GO:1901476) |
| 0.1 | 3.7 | GO:0016682 | oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor(GO:0016682) |
| 0.1 | 3.6 | GO:0005345 | purine nucleobase transmembrane transporter activity(GO:0005345) |
| 0.7 | 3.4 | GO:0004793 | threonine aldolase activity(GO:0004793) L-allo-threonine aldolase activity(GO:0008732) |
| 0.0 | 3.2 | GO:0046910 | pectinesterase inhibitor activity(GO:0046910) |
| 0.4 | 2.8 | GO:0004506 | squalene monooxygenase activity(GO:0004506) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.6 | 4.9 | PID CMYB PATHWAY | C-MYB transcription factor network |
| 0.3 | 1.0 | PID REG GR PATHWAY | Glucocorticoid receptor regulatory network |
| 0.2 | 0.8 | NABA MATRISOME ASSOCIATED | Ensemble of genes encoding ECM-associated proteins including ECM-affilaited proteins, ECM regulators and secreted factors |
| 0.1 | 0.5 | PID VEGF VEGFR PATHWAY | VEGF and VEGFR signaling network |
| 0.1 | 0.5 | PID CASPASE PATHWAY | Caspase cascade in apoptosis |
| 0.1 | 0.5 | NABA ECM GLYCOPROTEINS | Genes encoding structural ECM glycoproteins |
| 0.1 | 0.3 | PID IL12 2PATHWAY | IL12-mediated signaling events |
| 0.1 | 0.3 | PID HIF1A PATHWAY | Hypoxic and oxygen homeostasis regulation of HIF-1-alpha |
| 0.1 | 0.3 | ST WNT BETA CATENIN PATHWAY | Wnt/beta-catenin Pathway |
| 0.0 | 0.3 | PID IL2 PI3K PATHWAY | IL2 signaling events mediated by PI3K |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.9 | 5.5 | REACTOME REVERSIBLE HYDRATION OF CARBON DIOXIDE | Genes involved in Reversible Hydration of Carbon Dioxide |
| 0.1 | 0.9 | REACTOME MEIOTIC RECOMBINATION | Genes involved in Meiotic Recombination |
| 0.2 | 0.7 | REACTOME GLUCONEOGENESIS | Genes involved in Gluconeogenesis |
| 0.1 | 0.7 | REACTOME CHEMOKINE RECEPTORS BIND CHEMOKINES | Genes involved in Chemokine receptors bind chemokines |
| 0.2 | 0.6 | REACTOME AMINO ACID SYNTHESIS AND INTERCONVERSION TRANSAMINATION | Genes involved in Amino acid synthesis and interconversion (transamination) |
| 0.2 | 0.6 | REACTOME SEMAPHORIN INTERACTIONS | Genes involved in Semaphorin interactions |
| 0.2 | 0.5 | REACTOME NUCLEOTIDE BINDING DOMAIN LEUCINE RICH REPEAT CONTAINING RECEPTOR NLR SIGNALING PATHWAYS | Genes involved in Nucleotide-binding domain, leucine rich repeat containing receptor (NLR) signaling pathways |
| 0.1 | 0.5 | REACTOME G1 S SPECIFIC TRANSCRIPTION | Genes involved in G1/S-Specific Transcription |
| 0.1 | 0.4 | REACTOME DOPAMINE NEUROTRANSMITTER RELEASE CYCLE | Genes involved in Dopamine Neurotransmitter Release Cycle |
| 0.1 | 0.3 | REACTOME REGULATION OF HYPOXIA INDUCIBLE FACTOR HIF BY OXYGEN | Genes involved in Regulation of Hypoxia-inducible Factor (HIF) by Oxygen |