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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT2G46590
Z-value: 1.71
Transcription factors associated with AT2G46590
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT2G46590
|
AT2G46590 | Dof-type zinc finger DNA-binding family protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| DAG2 | arTal_v1_Chr2_+_19132925_19133005 | 0.63 | 1.7e-02 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr2_+_538250_538250 Show fit | 3.15 |
AT2G02120.1
|
Scorpion toxin-like knottin superfamily protein |
|
| arTal_v1_Chr5_-_17199793_17199910 Show fit | 2.56 |
AT5G42900.1
AT5G42900.3 AT5G42900.2 |
cold regulated protein 27 |
|
| arTal_v1_Chr4_-_7401951_7401951 Show fit | 2.51 |
AT4G12470.1
|
azelaic acid induced 1 |
|
| arTal_v1_Chr5_+_21240717_21240717 Show fit | 2.46 |
AT5G52310.1
|
low-temperature-responsive protein 78 (LTI78) / desiccation-responsive protein 29A (RD29A) |
|
| arTal_v1_Chr1_+_6763765_6763915 Show fit | 2.39 |
AT1G19530.1
AT1G19530.2 |
DNA polymerase epsilon catalytic subunit A |
|
| arTal_v1_Chr1_-_9275193_9275193 Show fit | 2.22 |
AT1G26790.1
|
Dof-type zinc finger DNA-binding family protein |
|
| arTal_v1_Chr3_+_4104463_4104463 Show fit | 2.08 |
AT3G12900.1
|
2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily protein |
|
| arTal_v1_Chr4_+_10707344_10707378 Show fit | 2.04 |
AT4G19690.2
AT4G19690.1 |
iron-regulated transporter 1 |
|
| arTal_v1_Chr4_+_18413775_18413775 Show fit | 2.04 |
AT4G39675.1
|
hypothetical protein |
|
| arTal_v1_Chr5_+_5206156_5206156 Show fit | 2.03 |
AT5G15950.2
|
Adenosylmethionine decarboxylase family protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT2G46590
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 13.8 | GO:0006412 | translation(GO:0006412) |
| 0.2 | 7.3 | GO:0045036 | protein targeting to chloroplast(GO:0045036) establishment of protein localization to chloroplast(GO:0072596) |
| 0.0 | 7.3 | GO:0006468 | protein phosphorylation(GO:0006468) |
| 0.1 | 6.9 | GO:0009658 | chloroplast organization(GO:0009658) |
| 0.1 | 5.7 | GO:0018209 | peptidyl-serine phosphorylation(GO:0018105) peptidyl-serine modification(GO:0018209) |
| 0.1 | 5.3 | GO:0009631 | cold acclimation(GO:0009631) |
| 0.1 | 5.2 | GO:0007623 | circadian rhythm(GO:0007623) rhythmic process(GO:0048511) |
| 0.1 | 5.1 | GO:0007018 | microtubule-based movement(GO:0007018) |
| 0.1 | 4.6 | GO:0006730 | one-carbon metabolic process(GO:0006730) |
| 0.1 | 4.5 | GO:0006338 | chromatin remodeling(GO:0006338) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 54.3 | GO:0005886 | plasma membrane(GO:0005886) |
| 0.0 | 25.2 | GO:0005829 | cytosol(GO:0005829) |
| 0.0 | 20.1 | GO:0044434 | chloroplast part(GO:0044434) |
| 0.0 | 18.6 | GO:0030054 | cell-cell junction(GO:0005911) plasmodesma(GO:0009506) cell junction(GO:0030054) symplast(GO:0055044) |
| 0.0 | 11.1 | GO:0005802 | trans-Golgi network(GO:0005802) |
| 0.2 | 10.8 | GO:0009707 | chloroplast outer membrane(GO:0009707) |
| 0.1 | 8.6 | GO:0022625 | cytosolic large ribosomal subunit(GO:0022625) |
| 0.1 | 7.0 | GO:0031969 | chloroplast membrane(GO:0031969) |
| 0.1 | 6.9 | GO:0044217 | host(GO:0018995) host cell part(GO:0033643) host intracellular part(GO:0033646) host intracellular organelle(GO:0033647) host intracellular membrane-bounded organelle(GO:0033648) host cell nucleus(GO:0042025) intracellular region of host(GO:0043656) host cell(GO:0043657) other organism(GO:0044215) other organism cell(GO:0044216) other organism part(GO:0044217) |
| 0.1 | 6.4 | GO:0000790 | nuclear chromatin(GO:0000790) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 33.4 | GO:0001071 | nucleic acid binding transcription factor activity(GO:0001071) transcription factor activity, sequence-specific DNA binding(GO:0003700) |
| 0.1 | 11.5 | GO:0015631 | tubulin binding(GO:0015631) |
| 0.0 | 9.7 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 0.1 | 7.3 | GO:0000978 | RNA polymerase II core promoter proximal region sequence-specific DNA binding(GO:0000978) |
| 0.3 | 5.9 | GO:0016157 | sucrose synthase activity(GO:0016157) |
| 0.3 | 5.0 | GO:0051117 | ATPase binding(GO:0051117) |
| 0.1 | 5.0 | GO:0010857 | calcium-dependent protein serine/threonine kinase activity(GO:0009931) calcium-dependent protein kinase activity(GO:0010857) |
| 0.0 | 5.0 | GO:0061630 | ubiquitin protein ligase activity(GO:0061630) |
| 0.0 | 5.0 | GO:0042803 | protein homodimerization activity(GO:0042803) |
| 0.1 | 4.8 | GO:0003727 | single-stranded RNA binding(GO:0003727) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 2.0 | PID CIRCADIAN PATHWAY | Circadian rhythm pathway |
| 0.6 | 1.8 | SIG PIP3 SIGNALING IN CARDIAC MYOCTES | Genes related to PIP3 signaling in cardiac myocytes |
| 0.5 | 1.6 | PID HNF3B PATHWAY | FOXA2 and FOXA3 transcription factor networks |
| 0.3 | 1.3 | PID PDGFRA PATHWAY | PDGFR-alpha signaling pathway |
| 0.1 | 1.1 | PID P53 DOWNSTREAM PATHWAY | Direct p53 effectors |
| 0.1 | 1.0 | PID HIF1 TFPATHWAY | HIF-1-alpha transcription factor network |
| 0.3 | 0.9 | ST G ALPHA I PATHWAY | G alpha i Pathway |
| 0.2 | 0.9 | PID IL4 2PATHWAY | IL4-mediated signaling events |
| 0.2 | 0.7 | PID AVB3 OPN PATHWAY | Osteopontin-mediated events |
| 0.1 | 0.7 | PID S1P S1P1 PATHWAY | S1P1 pathway |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 3.5 | REACTOME NONSENSE MEDIATED DECAY ENHANCED BY THE EXON JUNCTION COMPLEX | Genes involved in Nonsense Mediated Decay Enhanced by the Exon Junction Complex |
| 1.1 | 3.2 | REACTOME GABA SYNTHESIS RELEASE REUPTAKE AND DEGRADATION | Genes involved in GABA synthesis, release, reuptake and degradation |
| 0.7 | 2.8 | REACTOME LOSS OF NLP FROM MITOTIC CENTROSOMES | Genes involved in Loss of Nlp from mitotic centrosomes |
| 0.1 | 1.7 | REACTOME FACTORS INVOLVED IN MEGAKARYOCYTE DEVELOPMENT AND PLATELET PRODUCTION | Genes involved in Factors involved in megakaryocyte development and platelet production |
| 0.4 | 1.5 | REACTOME SYNTHESIS OF BILE ACIDS AND BILE SALTS VIA 7ALPHA HYDROXYCHOLESTEROL | Genes involved in Synthesis of bile acids and bile salts via 7alpha-hydroxycholesterol |
| 0.5 | 1.4 | REACTOME ABACAVIR TRANSPORT AND METABOLISM | Genes involved in Abacavir transport and metabolism |
| 0.4 | 1.4 | REACTOME FANCONI ANEMIA PATHWAY | Genes involved in Fanconi Anemia pathway |
| 0.3 | 1.4 | REACTOME BMAL1 CLOCK NPAS2 ACTIVATES CIRCADIAN EXPRESSION | Genes involved in BMAL1:CLOCK/NPAS2 Activates Circadian Expression |
| 0.3 | 0.9 | REACTOME ARMS MEDIATED ACTIVATION | Genes involved in ARMS-mediated activation |
| 0.3 | 0.9 | REACTOME TRNA AMINOACYLATION | Genes involved in tRNA Aminoacylation |