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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT3G12250
Z-value: 1.11
Transcription factors associated with AT3G12250
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT3G12250
|
AT3G12250 | TGACG motif-binding factor 6 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| TGA6 | arTal_v1_Chr3_+_3905423_3905686 | -0.22 | 4.4e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr2_-_17712290_17712330 Show fit | 1.24 |
AT2G42540.2
AT2G42540.4 AT2G42540.1 AT2G42540.3 |
cold-regulated 15a |
|
| arTal_v1_Chr5_+_21240717_21240717 Show fit | 0.98 |
AT5G52310.1
|
low-temperature-responsive protein 78 (LTI78) / desiccation-responsive protein 29A (RD29A) |
|
| arTal_v1_Chr1_+_3019639_3019639 Show fit | 0.88 |
AT1G09350.1
|
galactinol synthase 3 |
|
| arTal_v1_Chr3_+_4104463_4104463 Show fit | 0.83 |
AT3G12900.1
|
2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily protein |
|
| arTal_v1_Chr1_+_3020221_3020221 Show fit | 0.81 |
AT1G09350.2
|
galactinol synthase 3 |
|
| arTal_v1_Chr3_-_20576249_20576249 Show fit | 0.75 |
AT3G55500.1
|
expansin A16 |
|
| arTal_v1_Chr4_-_13016235_13016235 Show fit | 0.73 |
AT4G25470.1
|
C-repeat/DRE binding factor 2 |
|
| arTal_v1_Chr1_-_9275193_9275193 Show fit | 0.72 |
AT1G26790.1
|
Dof-type zinc finger DNA-binding family protein |
|
| arTal_v1_Chr4_+_15451988_15451988 Show fit | 0.71 |
AT4G31940.1
|
cytochrome P450, family 82, subfamily C, polypeptide 4 |
|
| arTal_v1_Chr3_+_3595694_3595694 Show fit | 0.64 |
AT3G11430.1
|
glycerol-3-phosphate acyltransferase 5 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT3G12250
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 2.8 | GO:0006885 | regulation of pH(GO:0006885) |
| 0.1 | 2.1 | GO:0055072 | iron ion homeostasis(GO:0055072) |
| 0.0 | 2.1 | GO:0009631 | cold acclimation(GO:0009631) |
| 0.1 | 1.9 | GO:0006012 | galactose metabolic process(GO:0006012) |
| 0.1 | 1.9 | GO:0010187 | negative regulation of seed germination(GO:0010187) |
| 0.4 | 1.8 | GO:0072708 | response to sorbitol(GO:0072708) |
| 0.1 | 1.6 | GO:1902074 | response to salt(GO:1902074) |
| 0.1 | 1.6 | GO:0006074 | (1->3)-beta-D-glucan metabolic process(GO:0006074) (1->3)-beta-D-glucan biosynthetic process(GO:0006075) |
| 0.2 | 1.4 | GO:0009819 | drought recovery(GO:0009819) |
| 0.0 | 1.4 | GO:0010054 | trichoblast differentiation(GO:0010054) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 3.7 | GO:0046658 | anchored component of plasma membrane(GO:0046658) |
| 0.0 | 2.1 | GO:0031225 | anchored component of membrane(GO:0031225) |
| 0.1 | 1.6 | GO:0000148 | 1,3-beta-D-glucan synthase complex(GO:0000148) |
| 0.1 | 1.4 | GO:0031012 | extracellular matrix(GO:0031012) |
| 0.0 | 1.3 | GO:0019005 | SCF ubiquitin ligase complex(GO:0019005) |
| 0.0 | 1.0 | GO:0005615 | extracellular space(GO:0005615) |
| 0.1 | 0.8 | GO:0098827 | endoplasmic reticulum tubular network(GO:0071782) endoplasmic reticulum subcompartment(GO:0098827) |
| 0.1 | 0.8 | GO:0005801 | cis-Golgi network(GO:0005801) |
| 0.0 | 0.8 | GO:0010494 | cytoplasmic stress granule(GO:0010494) |
| 0.0 | 0.8 | GO:0005811 | lipid particle(GO:0005811) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 2.2 | GO:0047216 | inositol 3-alpha-galactosyltransferase activity(GO:0047216) |
| 0.1 | 2.0 | GO:0016157 | sucrose synthase activity(GO:0016157) |
| 0.0 | 1.9 | GO:0016684 | peroxidase activity(GO:0004601) oxidoreductase activity, acting on peroxide as acceptor(GO:0016684) |
| 0.1 | 1.7 | GO:0048029 | monosaccharide binding(GO:0048029) |
| 0.1 | 1.6 | GO:0003843 | 1,3-beta-D-glucan synthase activity(GO:0003843) |
| 0.1 | 1.6 | GO:0005199 | structural constituent of cell wall(GO:0005199) |
| 0.0 | 1.6 | GO:0015385 | sodium:proton antiporter activity(GO:0015385) |
| 0.0 | 1.6 | GO:0008134 | transcription factor binding(GO:0008134) |
| 0.1 | 1.5 | GO:0052716 | hydroquinone:oxygen oxidoreductase activity(GO:0052716) |
| 0.0 | 1.5 | GO:0001228 | transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding(GO:0001228) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 0.6 | PID MYC ACTIV PATHWAY | Validated targets of C-MYC transcriptional activation |
| 0.1 | 0.3 | PID HDAC CLASSII PATHWAY | Signaling events mediated by HDAC Class II |
| 0.1 | 0.2 | PID ARF6 DOWNSTREAM PATHWAY | Arf6 downstream pathway |
| 0.1 | 0.2 | SIG PIP3 SIGNALING IN CARDIAC MYOCTES | Genes related to PIP3 signaling in cardiac myocytes |
| 0.0 | 0.2 | PID ERA GENOMIC PATHWAY | Validated nuclear estrogen receptor alpha network |
| 0.0 | 0.1 | PID LYMPH ANGIOGENESIS PATHWAY | VEGFR3 signaling in lymphatic endothelium |
| 0.0 | 0.1 | PID MTOR 4PATHWAY | mTOR signaling pathway |
| 0.0 | 0.1 | PID A6B1 A6B4 INTEGRIN PATHWAY | a6b1 and a6b4 Integrin signaling |
| 0.0 | 0.1 | PID P73PATHWAY | p73 transcription factor network |
| 0.0 | 0.1 | PID INTEGRIN A9B1 PATHWAY | Alpha9 beta1 integrin signaling events |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 0.8 | REACTOME GLYCOSPHINGOLIPID METABOLISM | Genes involved in Glycosphingolipid metabolism |
| 0.1 | 0.8 | REACTOME ABCA TRANSPORTERS IN LIPID HOMEOSTASIS | Genes involved in ABCA transporters in lipid homeostasis |
| 0.0 | 0.7 | REACTOME HEMOSTASIS | Genes involved in Hemostasis |
| 0.1 | 0.4 | REACTOME HDL MEDIATED LIPID TRANSPORT | Genes involved in HDL-mediated lipid transport |
| 0.1 | 0.4 | REACTOME METABOLISM OF VITAMINS AND COFACTORS | Genes involved in Metabolism of vitamins and cofactors |
| 0.0 | 0.4 | REACTOME PLATELET ACTIVATION SIGNALING AND AGGREGATION | Genes involved in Platelet activation, signaling and aggregation |
| 0.0 | 0.4 | REACTOME ASPARAGINE N LINKED GLYCOSYLATION | Genes involved in Asparagine N-linked glycosylation |
| 0.1 | 0.3 | REACTOME PURINE METABOLISM | Genes involved in Purine metabolism |
| 0.1 | 0.3 | REACTOME PRE NOTCH EXPRESSION AND PROCESSING | Genes involved in Pre-NOTCH Expression and Processing |
| 0.1 | 0.3 | REACTOME PI METABOLISM | Genes involved in PI Metabolism |