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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT3G04030
Z-value: 2.01
Transcription factors associated with AT3G04030
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT3G04030
|
AT3G04030 | Homeodomain-like superfamily protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| MYR2 | arTal_v1_Chr3_-_1044678_1044813 | 0.45 | 1.0e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr1_+_28975255_28975255 Show fit | 4.26 |
AT1G77120.1
|
alcohol dehydrogenase 1 |
|
| arTal_v1_Chr3_+_4104463_4104463 Show fit | 3.66 |
AT3G12900.1
|
2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily protein |
|
| arTal_v1_Chr5_-_14753088_14753088 Show fit | 3.45 |
AT5G37260.1
|
Homeodomain-like superfamily protein |
|
| arTal_v1_Chr5_+_21240717_21240717 Show fit | 3.27 |
AT5G52310.1
|
low-temperature-responsive protein 78 (LTI78) / desiccation-responsive protein 29A (RD29A) |
|
| arTal_v1_Chr4_+_10707344_10707378 Show fit | 3.23 |
AT4G19690.2
AT4G19690.1 |
iron-regulated transporter 1 |
|
| arTal_v1_Chr1_+_3019639_3019639 Show fit | 3.21 |
AT1G09350.1
|
galactinol synthase 3 |
|
| arTal_v1_Chr5_+_5206156_5206156 Show fit | 3.19 |
AT5G15950.2
|
Adenosylmethionine decarboxylase family protein |
|
| arTal_v1_Chr5_+_5205869_5205869 Show fit | 3.19 |
AT5G15950.1
|
Adenosylmethionine decarboxylase family protein |
|
| arTal_v1_Chr5_-_22712441_22712441 Show fit | 3.18 |
AT5G56080.1
|
nicotianamine synthase 2 |
|
| arTal_v1_Chr1_+_3020221_3020221 Show fit | 2.98 |
AT1G09350.2
|
galactinol synthase 3 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT3G04030
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 13.8 | GO:0006412 | translation(GO:0006412) |
| 0.1 | 11.3 | GO:0018209 | peptidyl-serine phosphorylation(GO:0018105) peptidyl-serine modification(GO:0018209) |
| 1.7 | 10.4 | GO:0009413 | response to flooding(GO:0009413) |
| 0.0 | 10.0 | GO:0006468 | protein phosphorylation(GO:0006468) |
| 0.2 | 9.6 | GO:0006099 | tricarboxylic acid cycle(GO:0006099) citrate metabolic process(GO:0006101) |
| 0.2 | 7.7 | GO:0010043 | response to zinc ion(GO:0010043) |
| 0.1 | 7.6 | GO:0080147 | root hair cell development(GO:0080147) |
| 0.3 | 7.2 | GO:0006012 | galactose metabolic process(GO:0006012) |
| 1.7 | 6.7 | GO:0015675 | nickel cation transport(GO:0015675) |
| 1.1 | 6.7 | GO:0042754 | negative regulation of circadian rhythm(GO:0042754) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 105.7 | GO:0005829 | cytosol(GO:0005829) |
| 0.1 | 59.7 | GO:0005911 | cell-cell junction(GO:0005911) plasmodesma(GO:0009506) cell junction(GO:0030054) symplast(GO:0055044) |
| 0.0 | 44.7 | GO:0071944 | cell periphery(GO:0071944) |
| 0.1 | 28.0 | GO:0005730 | nucleolus(GO:0005730) |
| 0.0 | 19.0 | GO:0005783 | endoplasmic reticulum(GO:0005783) |
| 0.1 | 17.3 | GO:0022625 | cytosolic large ribosomal subunit(GO:0022625) |
| 0.1 | 14.3 | GO:0005768 | endosome(GO:0005768) |
| 0.1 | 7.9 | GO:0009707 | chloroplast outer membrane(GO:0009707) |
| 0.1 | 7.2 | GO:0009705 | plant-type vacuole membrane(GO:0009705) |
| 0.0 | 7.0 | GO:0009570 | chloroplast stroma(GO:0009570) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 22.2 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 0.0 | 17.5 | GO:0004672 | protein kinase activity(GO:0004672) |
| 0.0 | 16.4 | GO:0003729 | mRNA binding(GO:0003729) poly(A) RNA binding(GO:0044822) |
| 0.2 | 13.7 | GO:0003724 | RNA helicase activity(GO:0003724) |
| 0.1 | 9.8 | GO:0051082 | unfolded protein binding(GO:0051082) |
| 0.2 | 8.3 | GO:0050135 | NAD(P)+ nucleosidase activity(GO:0050135) |
| 0.1 | 8.2 | GO:0003924 | GTPase activity(GO:0003924) |
| 0.4 | 7.7 | GO:0015086 | cadmium ion transmembrane transporter activity(GO:0015086) |
| 0.4 | 7.5 | GO:0016157 | sucrose synthase activity(GO:0016157) |
| 0.1 | 7.0 | GO:0010857 | calcium-dependent protein serine/threonine kinase activity(GO:0009931) calcium-dependent protein kinase activity(GO:0010857) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.6 | 1.7 | PID ENDOTHELIN PATHWAY | Endothelins |
| 0.2 | 1.5 | PID HIF1 TFPATHWAY | HIF-1-alpha transcription factor network |
| 0.3 | 1.3 | PID IL2 PI3K PATHWAY | IL2 signaling events mediated by PI3K |
| 0.3 | 1.1 | ST ERK1 ERK2 MAPK PATHWAY | ERK1/ERK2 MAPK Pathway |
| 0.3 | 1.1 | NABA SECRETED FACTORS | Genes encoding secreted soluble factors |
| 0.3 | 0.9 | PID BETA CATENIN NUC PATHWAY | Regulation of nuclear beta catenin signaling and target gene transcription |
| 0.2 | 0.9 | PID HDAC CLASSII PATHWAY | Signaling events mediated by HDAC Class II |
| 0.2 | 0.8 | PID S1P S1P1 PATHWAY | S1P1 pathway |
| 0.2 | 0.7 | PID BARD1 PATHWAY | BARD1 signaling events |
| 0.1 | 0.7 | PID MTOR 4PATHWAY | mTOR signaling pathway |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.2 | 3.5 | REACTOME GABA SYNTHESIS RELEASE REUPTAKE AND DEGRADATION | Genes involved in GABA synthesis, release, reuptake and degradation |
| 0.4 | 2.2 | REACTOME PROLACTIN RECEPTOR SIGNALING | Genes involved in Prolactin receptor signaling |
| 0.1 | 2.0 | REACTOME HEMOSTASIS | Genes involved in Hemostasis |
| 0.6 | 1.9 | REACTOME MTORC1 MEDIATED SIGNALLING | Genes involved in mTORC1-mediated signalling |
| 0.5 | 1.9 | REACTOME CITRIC ACID CYCLE TCA CYCLE | Genes involved in Citric acid cycle (TCA cycle) |
| 0.2 | 1.8 | REACTOME METABOLISM OF CARBOHYDRATES | Genes involved in Metabolism of carbohydrates |
| 0.6 | 1.7 | REACTOME GLYCOSPHINGOLIPID METABOLISM | Genes involved in Glycosphingolipid metabolism |
| 0.6 | 1.7 | REACTOME P130CAS LINKAGE TO MAPK SIGNALING FOR INTEGRINS | Genes involved in p130Cas linkage to MAPK signaling for integrins |
| 0.2 | 1.7 | REACTOME PPARA ACTIVATES GENE EXPRESSION | Genes involved in PPARA Activates Gene Expression |
| 0.3 | 1.6 | REACTOME GLUCOSE TRANSPORT | Genes involved in Glucose transport |