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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT3G21890
Z-value: 1.10
Transcription factors associated with AT3G21890
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT3G21890
|
AT3G21890 | B-box type zinc finger family protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| BBX31 | arTal_v1_Chr3_-_7709933_7709933 | -0.46 | 1.0e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr4_-_7421828_7421828 Show fit | 1.63 |
AT4G12520.1
|
Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein |
|
| arTal_v1_Chr4_+_6832650_6832650 Show fit | 1.48 |
AT4G11210.1
|
Disease resistance-responsive (dirigent-like protein) family protein |
|
| arTal_v1_Chr4_-_13016235_13016235 Show fit | 1.48 |
AT4G25470.1
|
C-repeat/DRE binding factor 2 |
|
| arTal_v1_Chr4_+_6826587_6826587 Show fit | 1.46 |
AT4G11190.1
|
Disease resistance-responsive (dirigent-like protein) family protein |
|
| arTal_v1_Chr1_-_10164452_10164452 Show fit | 1.40 |
AT1G29090.1
|
Cysteine proteinases superfamily protein |
|
| arTal_v1_Chr2_-_9538963_9538963 Show fit | 1.30 |
AT2G22470.1
|
arabinogalactan protein 2 |
|
| arTal_v1_Chr4_-_13022996_13022996 Show fit | 1.28 |
AT4G25490.1
|
C-repeat/DRE binding factor 1 |
|
| arTal_v1_Chr5_+_1119937_1119937 Show fit | 1.24 |
AT5G04120.1
|
Phosphoglycerate mutase family protein |
|
| arTal_v1_Chr4_+_11753842_11753842 Show fit | 1.24 |
AT4G22212.1
|
defensin-like protein |
|
| arTal_v1_Chr5_-_19036938_19036938 Show fit | 1.24 |
AT5G46890.1
|
Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT3G21890
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 4.3 | GO:0009845 | seed germination(GO:0009845) |
| 0.1 | 3.5 | GO:0045168 | cell-cell signaling involved in cell fate commitment(GO:0045168) |
| 0.2 | 3.4 | GO:0042761 | very long-chain fatty acid biosynthetic process(GO:0042761) |
| 0.1 | 3.3 | GO:0009631 | cold acclimation(GO:0009631) |
| 0.1 | 3.1 | GO:0010411 | xyloglucan metabolic process(GO:0010411) |
| 0.1 | 3.0 | GO:0006099 | tricarboxylic acid cycle(GO:0006099) citrate metabolic process(GO:0006101) |
| 0.1 | 2.9 | GO:0010037 | response to carbon dioxide(GO:0010037) |
| 0.1 | 2.4 | GO:0090333 | regulation of stomatal closure(GO:0090333) |
| 0.0 | 2.4 | GO:0006869 | lipid transport(GO:0006869) |
| 0.0 | 2.3 | GO:0009736 | cytokinin-activated signaling pathway(GO:0009736) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 37.9 | GO:0005576 | extracellular region(GO:0005576) |
| 0.1 | 28.2 | GO:0031225 | anchored component of membrane(GO:0031225) |
| 0.0 | 15.7 | GO:0030312 | cell wall(GO:0005618) external encapsulating structure(GO:0030312) |
| 0.0 | 5.3 | GO:0048046 | apoplast(GO:0048046) |
| 0.0 | 4.2 | GO:0000138 | Golgi trans cisterna(GO:0000138) |
| 0.0 | 3.4 | GO:0022625 | cytosolic large ribosomal subunit(GO:0022625) |
| 0.1 | 3.2 | GO:0005764 | lysosome(GO:0005764) |
| 0.0 | 2.7 | GO:0042995 | cell projection(GO:0042995) |
| 0.1 | 1.7 | GO:0031228 | integral component of Golgi membrane(GO:0030173) intrinsic component of Golgi membrane(GO:0031228) |
| 0.1 | 1.6 | GO:0005811 | lipid particle(GO:0005811) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 6.9 | GO:0009055 | electron carrier activity(GO:0009055) |
| 0.1 | 5.8 | GO:0015171 | amino acid transmembrane transporter activity(GO:0015171) |
| 0.1 | 4.6 | GO:0016762 | xyloglucan:xyloglucosyl transferase activity(GO:0016762) |
| 0.1 | 3.7 | GO:0004197 | cysteine-type endopeptidase activity(GO:0004197) |
| 0.2 | 3.4 | GO:0052716 | hydroquinone:oxygen oxidoreductase activity(GO:0052716) |
| 0.0 | 3.1 | GO:0005507 | copper ion binding(GO:0005507) |
| 0.0 | 3.1 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 0.1 | 2.8 | GO:0000156 | phosphorelay response regulator activity(GO:0000156) |
| 0.0 | 2.8 | GO:0004650 | polygalacturonase activity(GO:0004650) |
| 0.0 | 2.8 | GO:0030599 | pectinesterase activity(GO:0030599) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 2.3 | PID CMYB PATHWAY | C-MYB transcription factor network |
| 0.4 | 1.4 | NABA SECRETED FACTORS | Genes encoding secreted soluble factors |
| 0.3 | 0.9 | PID IL12 2PATHWAY | IL12-mediated signaling events |
| 0.3 | 0.8 | SA CASPASE CASCADE | Apoptosis is mediated by caspases, cysteine proteases arranged in a proteolytic cascade. |
| 0.1 | 0.8 | NABA ECM GLYCOPROTEINS | Genes encoding structural ECM glycoproteins |
| 0.2 | 0.7 | ST WNT BETA CATENIN PATHWAY | Wnt/beta-catenin Pathway |
| 0.1 | 0.7 | PID MYC ACTIV PATHWAY | Validated targets of C-MYC transcriptional activation |
| 0.1 | 0.3 | SA G2 AND M PHASES | Cdc25 activates the cdc2/cyclin B complex to induce the G2/M transition. |
| 0.1 | 0.3 | PID IL8 CXCR2 PATHWAY | IL8- and CXCR2-mediated signaling events |
| 0.1 | 0.3 | PID HIF1A PATHWAY | Hypoxic and oxygen homeostasis regulation of HIF-1-alpha |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 1.8 | REACTOME REVERSIBLE HYDRATION OF CARBON DIOXIDE | Genes involved in Reversible Hydration of Carbon Dioxide |
| 0.2 | 1.1 | REACTOME MHC CLASS II ANTIGEN PRESENTATION | Genes involved in MHC class II antigen presentation |
| 0.2 | 0.8 | REACTOME G1 S SPECIFIC TRANSCRIPTION | Genes involved in G1/S-Specific Transcription |
| 0.1 | 0.6 | REACTOME PROLACTIN RECEPTOR SIGNALING | Genes involved in Prolactin receptor signaling |
| 0.1 | 0.6 | REACTOME PLATELET ACTIVATION SIGNALING AND AGGREGATION | Genes involved in Platelet activation, signaling and aggregation |
| 0.2 | 0.5 | REACTOME DEADENYLATION OF MRNA | Genes involved in Deadenylation of mRNA |
| 0.2 | 0.5 | REACTOME INTRINSIC PATHWAY FOR APOPTOSIS | Genes involved in Intrinsic Pathway for Apoptosis |
| 0.1 | 0.5 | REACTOME ANTIVIRAL MECHANISM BY IFN STIMULATED GENES | Genes involved in Antiviral mechanism by IFN-stimulated genes |
| 0.1 | 0.5 | REACTOME CHEMOKINE RECEPTORS BIND CHEMOKINES | Genes involved in Chemokine receptors bind chemokines |
| 0.0 | 0.5 | REACTOME HEMOSTASIS | Genes involved in Hemostasis |