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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT3G45610
Z-value: 1.21
Transcription factors associated with AT3G45610
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT3G45610
|
AT3G45610 | Dof-type zinc finger DNA-binding family protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| DOF6 | arTal_v1_Chr3_-_16740546_16740546 | 0.60 | 2.4e-02 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr2_+_538250_538250 Show fit | 1.99 |
AT2G02120.1
|
Scorpion toxin-like knottin superfamily protein |
|
| arTal_v1_Chr3_+_4104463_4104463 Show fit | 1.93 |
AT3G12900.1
|
2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily protein |
|
| arTal_v1_Chr4_+_10707344_10707378 Show fit | 1.90 |
AT4G19690.2
AT4G19690.1 |
iron-regulated transporter 1 |
|
| arTal_v1_Chr5_+_21240717_21240717 Show fit | 1.85 |
AT5G52310.1
|
low-temperature-responsive protein 78 (LTI78) / desiccation-responsive protein 29A (RD29A) |
|
| arTal_v1_Chr4_-_7401951_7401951 Show fit | 1.83 |
AT4G12470.1
|
azelaic acid induced 1 |
|
| arTal_v1_Chr5_+_5206156_5206156 Show fit | 1.83 |
AT5G15950.2
|
Adenosylmethionine decarboxylase family protein |
|
| arTal_v1_Chr5_+_5205869_5205869 Show fit | 1.81 |
AT5G15950.1
|
Adenosylmethionine decarboxylase family protein |
|
| arTal_v1_Chr3_+_18940643_18940643 Show fit | 1.66 |
AT3G50970.1
|
dehydrin family protein |
|
| arTal_v1_Chr5_-_14753088_14753088 Show fit | 1.58 |
AT5G37260.1
|
Homeodomain-like superfamily protein |
|
| arTal_v1_Chr3_+_1693548_1693548 Show fit | 1.58 |
AT3G05727.1
|
S locus-related glycoprotein 1 (SLR1) binding pollen coat protein family |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT3G45610
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 16.4 | GO:0006468 | protein phosphorylation(GO:0006468) |
| 0.0 | 11.1 | GO:0006412 | translation(GO:0006412) |
| 0.1 | 6.2 | GO:0018105 | peptidyl-serine phosphorylation(GO:0018105) peptidyl-serine modification(GO:0018209) |
| 0.1 | 4.9 | GO:0072596 | protein targeting to chloroplast(GO:0045036) establishment of protein localization to chloroplast(GO:0072596) |
| 0.1 | 4.7 | GO:0009631 | cold acclimation(GO:0009631) |
| 0.7 | 4.3 | GO:0042754 | negative regulation of circadian rhythm(GO:0042754) |
| 0.1 | 4.2 | GO:0015995 | chlorophyll biosynthetic process(GO:0015995) |
| 0.1 | 4.0 | GO:0006012 | galactose metabolic process(GO:0006012) |
| 0.1 | 3.8 | GO:0006730 | one-carbon metabolic process(GO:0006730) |
| 0.3 | 3.6 | GO:0010100 | negative regulation of photomorphogenesis(GO:0010100) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 63.1 | GO:0005829 | cytosol(GO:0005829) |
| 0.0 | 46.8 | GO:0005886 | plasma membrane(GO:0005886) |
| 0.0 | 31.8 | GO:0030054 | cell-cell junction(GO:0005911) plasmodesma(GO:0009506) cell junction(GO:0030054) symplast(GO:0055044) |
| 0.0 | 20.6 | GO:0009570 | chloroplast stroma(GO:0009570) |
| 0.1 | 12.3 | GO:0005802 | trans-Golgi network(GO:0005802) |
| 0.0 | 8.3 | GO:0009534 | chloroplast thylakoid(GO:0009534) |
| 0.1 | 6.8 | GO:0022625 | cytosolic large ribosomal subunit(GO:0022625) |
| 0.1 | 6.0 | GO:0022627 | cytosolic small ribosomal subunit(GO:0022627) |
| 0.1 | 5.9 | GO:0009707 | chloroplast outer membrane(GO:0009707) |
| 0.1 | 5.6 | GO:0009504 | cell plate(GO:0009504) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 15.2 | GO:0004672 | protein kinase activity(GO:0004672) |
| 0.0 | 11.0 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 0.1 | 9.4 | GO:0016820 | hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances(GO:0016820) ATPase activity, coupled to transmembrane movement of substances(GO:0042626) ATPase activity, coupled to movement of substances(GO:0043492) |
| 0.0 | 7.9 | GO:0044822 | mRNA binding(GO:0003729) poly(A) RNA binding(GO:0044822) |
| 0.0 | 7.0 | GO:0015631 | tubulin binding(GO:0015631) |
| 0.1 | 5.9 | GO:0010857 | calcium-dependent protein serine/threonine kinase activity(GO:0009931) calcium-dependent protein kinase activity(GO:0010857) |
| 0.0 | 5.3 | GO:0008270 | zinc ion binding(GO:0008270) |
| 0.3 | 4.8 | GO:0016157 | sucrose synthase activity(GO:0016157) |
| 0.0 | 4.5 | GO:0005509 | calcium ion binding(GO:0005509) |
| 0.1 | 4.2 | GO:0050135 | NAD(P)+ nucleosidase activity(GO:0050135) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 1.7 | PID HIF1 TFPATHWAY | HIF-1-alpha transcription factor network |
| 0.3 | 1.6 | PID CIRCADIAN PATHWAY | Circadian rhythm pathway |
| 0.4 | 1.2 | PID ENDOTHELIN PATHWAY | Endothelins |
| 0.4 | 1.1 | SIG PIP3 SIGNALING IN CARDIAC MYOCTES | Genes related to PIP3 signaling in cardiac myocytes |
| 0.3 | 1.0 | PID HNF3B PATHWAY | FOXA2 and FOXA3 transcription factor networks |
| 0.3 | 0.8 | ST G ALPHA I PATHWAY | G alpha i Pathway |
| 0.2 | 0.8 | PID S1P META PATHWAY | Sphingosine 1-phosphate (S1P) pathway |
| 0.2 | 0.8 | PID REG GR PATHWAY | Glucocorticoid receptor regulatory network |
| 0.2 | 0.7 | PID DELTA NP63 PATHWAY | Validated transcriptional targets of deltaNp63 isoforms |
| 0.2 | 0.7 | PID IL4 2PATHWAY | IL4-mediated signaling events |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.8 | 2.4 | REACTOME GABA SYNTHESIS RELEASE REUPTAKE AND DEGRADATION | Genes involved in GABA synthesis, release, reuptake and degradation |
| 0.1 | 2.4 | REACTOME ABC FAMILY PROTEINS MEDIATED TRANSPORT | Genes involved in ABC-family proteins mediated transport |
| 0.5 | 2.1 | REACTOME LOSS OF NLP FROM MITOTIC CENTROSOMES | Genes involved in Loss of Nlp from mitotic centrosomes |
| 0.1 | 1.7 | REACTOME NONSENSE MEDIATED DECAY ENHANCED BY THE EXON JUNCTION COMPLEX | Genes involved in Nonsense Mediated Decay Enhanced by the Exon Junction Complex |
| 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 |
| 0.2 | 1.5 | REACTOME LIPID DIGESTION MOBILIZATION AND TRANSPORT | Genes involved in Lipid digestion, mobilization, and transport |
| 0.3 | 1.4 | REACTOME GLUCOSE TRANSPORT | Genes involved in Glucose transport |
| 0.4 | 1.2 | REACTOME P130CAS LINKAGE TO MAPK SIGNALING FOR INTEGRINS | Genes involved in p130Cas linkage to MAPK signaling for integrins |
| 0.3 | 1.2 | REACTOME BMAL1 CLOCK NPAS2 ACTIVATES CIRCADIAN EXPRESSION | Genes involved in BMAL1:CLOCK/NPAS2 Activates Circadian Expression |
| 0.3 | 1.1 | REACTOME FANCONI ANEMIA PATHWAY | Genes involved in Fanconi Anemia pathway |