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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT5G10030
Z-value: 0.85
Transcription factors associated with AT5G10030
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT5G10030
|
AT5G10030 | TGACG motif-binding factor 4 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| TGA4 | arTal_v1_Chr5_-_3139624_3139624 | -0.49 | 7.5e-02 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr5_+_16441808_16441808 Show fit | 1.71 |
AT5G41080.2
|
PLC-like phosphodiesterases superfamily protein |
|
| arTal_v1_Chr5_+_16441655_16441655 Show fit | 1.70 |
AT5G41080.1
|
PLC-like phosphodiesterases superfamily protein |
|
| arTal_v1_Chr4_+_6826587_6826587 Show fit | 1.39 |
AT4G11190.1
|
Disease resistance-responsive (dirigent-like protein) family protein |
|
| arTal_v1_Chr4_+_12686459_12686459 Show fit | 1.36 |
AT4G24570.1
|
dicarboxylate carrier 2 |
|
| arTal_v1_Chr1_-_2747936_2747967 Show fit | 1.17 |
AT1G08630.6
AT1G08630.7 AT1G08630.5 AT1G08630.2 |
threonine aldolase 1 |
|
| arTal_v1_Chr5_+_23187840_23187840 Show fit | 1.16 |
AT5G57220.1
|
cytochrome P450, family 81, subfamily F, polypeptide 2 |
|
| arTal_v1_Chr3_+_5505360_5505360 Show fit | 1.03 |
AT3G16240.1
|
delta tonoplast integral protein |
|
| arTal_v1_Chr3_-_2130451_2130451 Show fit | 1.02 |
AT3G06750.1
|
hydroxyproline-rich glycoprotein family protein |
|
| arTal_v1_Chr5_+_9683988_9683988 Show fit | 1.01 |
AT5G27420.1
|
carbon/nitrogen insensitive 1 |
|
| arTal_v1_Chr4_-_12337599_12337599 Show fit | 1.00 |
AT4G23680.1
|
Polyketide cyclase/dehydrase and lipid transport superfamily protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT5G10030
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 7.9 | GO:0010200 | response to chitin(GO:0010200) |
| 0.0 | 6.5 | GO:0071456 | cellular response to hypoxia(GO:0071456) |
| 0.1 | 3.9 | GO:0016126 | sterol biosynthetic process(GO:0016126) |
| 0.9 | 3.4 | GO:0046475 | glycerophospholipid catabolic process(GO:0046475) |
| 0.6 | 3.3 | GO:0006567 | threonine catabolic process(GO:0006567) |
| 0.0 | 2.3 | GO:0045490 | pectin catabolic process(GO:0045490) |
| 0.7 | 2.1 | GO:0071422 | thiosulfate transport(GO:0015709) succinate transmembrane transport(GO:0071422) |
| 0.3 | 1.8 | GO:0000289 | nuclear-transcribed mRNA poly(A) tail shortening(GO:0000289) |
| 0.0 | 1.8 | GO:0010431 | seed maturation(GO:0010431) |
| 0.3 | 1.7 | GO:0009759 | indole glucosinolate biosynthetic process(GO:0009759) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 6.8 | GO:0031225 | anchored component of membrane(GO:0031225) |
| 0.0 | 2.2 | GO:0009505 | plant-type cell wall(GO:0009505) |
| 0.1 | 1.8 | GO:0031012 | extracellular matrix(GO:0031012) |
| 0.5 | 1.6 | GO:0030015 | CCR4-NOT core complex(GO:0030015) |
| 0.0 | 1.0 | GO:0005887 | integral component of plasma membrane(GO:0005887) |
| 0.0 | 0.9 | GO:0012511 | monolayer-surrounded lipid storage body(GO:0012511) |
| 0.3 | 0.8 | GO:0009514 | glyoxysome(GO:0009514) |
| 0.1 | 0.8 | GO:0000322 | storage vacuole(GO:0000322) protein storage vacuole(GO:0000326) |
| 0.1 | 0.7 | GO:0030139 | endocytic vesicle(GO:0030139) |
| 0.0 | 0.6 | GO:0031201 | SNARE complex(GO:0031201) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 3.8 | GO:0008889 | glycerophosphodiester phosphodiesterase activity(GO:0008889) |
| 0.7 | 3.3 | GO:0004793 | threonine aldolase activity(GO:0004793) L-allo-threonine aldolase activity(GO:0008732) |
| 0.4 | 2.9 | GO:0004506 | squalene monooxygenase activity(GO:0004506) |
| 0.0 | 2.8 | GO:0046910 | pectinesterase inhibitor activity(GO:0046910) |
| 0.7 | 2.1 | GO:0015117 | thiosulfate transmembrane transporter activity(GO:0015117) |
| 0.3 | 1.6 | GO:0004535 | poly(A)-specific ribonuclease activity(GO:0004535) |
| 0.1 | 1.6 | GO:0052716 | hydroquinone:oxygen oxidoreductase activity(GO:0052716) |
| 0.1 | 1.5 | GO:0016833 | oxo-acid-lyase activity(GO:0016833) |
| 0.1 | 1.5 | GO:0004805 | trehalose-phosphatase activity(GO:0004805) |
| 0.0 | 1.5 | GO:0015144 | carbohydrate transmembrane transporter activity(GO:0015144) carbohydrate transporter activity(GO:1901476) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 0.7 | NABA MATRISOME ASSOCIATED | Ensemble of genes encoding ECM-associated proteins including ECM-affilaited proteins, ECM regulators and secreted factors |
| 0.2 | 0.6 | PID REG GR PATHWAY | Glucocorticoid receptor regulatory network |
| 0.1 | 0.2 | PID BETA CATENIN NUC PATHWAY | Regulation of nuclear beta catenin signaling and target gene transcription |
| 0.1 | 0.2 | PID IFNG PATHWAY | IFN-gamma pathway |
| 0.1 | 0.2 | ST MYOCYTE AD PATHWAY | Myocyte Adrenergic Pathway is a specific case of the generalized Adrenergic Pathway. |
| 0.0 | 0.2 | ST WNT BETA CATENIN PATHWAY | Wnt/beta-catenin Pathway |
| 0.0 | 0.1 | PID SMAD2 3NUCLEAR PATHWAY | Regulation of nuclear SMAD2/3 signaling |
| 0.0 | 0.1 | PID IL8 CXCR2 PATHWAY | IL8- and CXCR2-mediated signaling events |
| 0.0 | 0.0 | SA G1 AND S PHASES | Cdk2, 4, and 6 bind cyclin D in G1, while cdk2/cyclin E promotes the G1/S transition. |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 1.0 | REACTOME CHEMOKINE RECEPTORS BIND CHEMOKINES | Genes involved in Chemokine receptors bind chemokines |
| 0.1 | 0.6 | REACTOME GLUCONEOGENESIS | Genes involved in Gluconeogenesis |
| 0.0 | 0.4 | REACTOME ANTIGEN PROCESSING UBIQUITINATION PROTEASOME DEGRADATION | Genes involved in Antigen processing: Ubiquitination & Proteasome degradation |
| 0.0 | 0.3 | REACTOME EXTENSION OF TELOMERES | Genes involved in Extension of Telomeres |
| 0.1 | 0.2 | REACTOME NOD1 2 SIGNALING PATHWAY | Genes involved in NOD1/2 Signaling Pathway |
| 0.0 | 0.2 | REACTOME TRANSCRIPTIONAL REGULATION OF WHITE ADIPOCYTE DIFFERENTIATION | Genes involved in Transcriptional Regulation of White Adipocyte Differentiation |
| 0.0 | 0.2 | REACTOME GENERIC TRANSCRIPTION PATHWAY | Genes involved in Generic Transcription Pathway |
| 0.0 | 0.1 | REACTOME NUCLEAR SIGNALING BY ERBB4 | Genes involved in Nuclear signaling by ERBB4 |
| 0.0 | 0.1 | REACTOME SEMAPHORIN INTERACTIONS | Genes involved in Semaphorin interactions |
| 0.0 | 0.1 | REACTOME GLYCEROPHOSPHOLIPID BIOSYNTHESIS | Genes involved in Glycerophospholipid biosynthesis |