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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT4G38000
Z-value: 1.28
Transcription factors associated with AT4G38000
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT4G38000
|
AT4G38000 | DNA binding with one finger 4.7 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| DOF4.7 | arTal_v1_Chr4_+_17858351_17858351 | -0.21 | 4.8e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr1_+_3019639_3019639 Show fit | 2.10 |
AT1G09350.1
|
galactinol synthase 3 |
|
| arTal_v1_Chr1_+_5872024_5872024 Show fit | 2.09 |
AT1G17180.1
|
glutathione S-transferase TAU 25 |
|
| arTal_v1_Chr5_+_21240717_21240717 Show fit | 2.04 |
AT5G52310.1
|
low-temperature-responsive protein 78 (LTI78) / desiccation-responsive protein 29A (RD29A) |
|
| arTal_v1_Chr1_+_3020221_3020221 Show fit | 1.98 |
AT1G09350.2
|
galactinol synthase 3 |
|
| arTal_v1_Chr2_+_12004658_12004700 Show fit | 1.88 |
AT2G28160.1
AT2G28160.2 |
FER-like regulator of iron uptake |
|
| arTal_v1_Chr5_-_17199793_17199910 Show fit | 1.84 |
AT5G42900.1
AT5G42900.3 AT5G42900.2 |
cold regulated protein 27 |
|
| arTal_v1_Chr2_+_538250_538250 Show fit | 1.77 |
AT2G02120.1
|
Scorpion toxin-like knottin superfamily protein |
|
| arTal_v1_Chr1_-_9275193_9275193 Show fit | 1.75 |
AT1G26790.1
|
Dof-type zinc finger DNA-binding family protein |
|
| arTal_v1_Chr3_+_2441565_2441657 Show fit | 1.65 |
AT3G07650.4
AT3G07650.1 AT3G07650.3 AT3G07650.2 |
CONSTANS-like 9 |
|
| arTal_v1_Chr3_+_5025383_5025383 Show fit | 1.58 |
AT3G14940.2
|
phosphoenolpyruvate carboxylase 3 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT4G38000
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 13.2 | GO:0006468 | protein phosphorylation(GO:0006468) |
| 0.2 | 6.0 | GO:0006012 | galactose metabolic process(GO:0006012) |
| 0.8 | 4.0 | GO:0072708 | response to sorbitol(GO:0072708) |
| 0.1 | 3.7 | GO:0006099 | tricarboxylic acid cycle(GO:0006099) citrate metabolic process(GO:0006101) |
| 0.2 | 3.3 | GO:1902074 | response to salt(GO:1902074) |
| 0.2 | 2.9 | GO:0006075 | (1->3)-beta-D-glucan metabolic process(GO:0006074) (1->3)-beta-D-glucan biosynthetic process(GO:0006075) |
| 0.0 | 2.8 | GO:0071383 | brassinosteroid mediated signaling pathway(GO:0009742) steroid hormone mediated signaling pathway(GO:0043401) cellular response to steroid hormone stimulus(GO:0071383) |
| 0.1 | 2.3 | GO:0010143 | cutin biosynthetic process(GO:0010143) |
| 0.1 | 2.2 | GO:2000028 | regulation of photoperiodism, flowering(GO:2000028) |
| 0.2 | 2.1 | GO:0070973 | protein localization to endoplasmic reticulum exit site(GO:0070973) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 34.4 | GO:0005886 | plasma membrane(GO:0005886) |
| 0.0 | 8.6 | GO:0005618 | cell wall(GO:0005618) external encapsulating structure(GO:0030312) |
| 0.0 | 6.5 | GO:0009505 | plant-type cell wall(GO:0009505) |
| 0.0 | 4.4 | GO:0031225 | anchored component of membrane(GO:0031225) |
| 0.0 | 3.8 | GO:0048046 | apoplast(GO:0048046) |
| 0.0 | 3.7 | GO:0000138 | Golgi trans cisterna(GO:0000138) |
| 0.0 | 3.6 | GO:0005789 | endoplasmic reticulum membrane(GO:0005789) |
| 0.2 | 2.9 | GO:0000148 | 1,3-beta-D-glucan synthase complex(GO:0000148) |
| 0.0 | 2.5 | GO:0000325 | plant-type vacuole(GO:0000325) |
| 0.0 | 1.7 | GO:0005887 | integral component of plasma membrane(GO:0005887) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 8.5 | GO:0004672 | protein kinase activity(GO:0004672) |
| 0.5 | 4.9 | GO:0047216 | inositol 3-alpha-galactosyltransferase activity(GO:0047216) |
| 0.3 | 4.9 | GO:0016157 | sucrose synthase activity(GO:0016157) |
| 0.0 | 3.9 | GO:0003724 | RNA helicase activity(GO:0003724) |
| 0.8 | 3.8 | GO:0008964 | phosphoenolpyruvate carboxylase activity(GO:0008964) |
| 0.0 | 3.0 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 0.2 | 2.9 | GO:0003843 | 1,3-beta-D-glucan synthase activity(GO:0003843) |
| 0.0 | 2.9 | GO:0004650 | polygalacturonase activity(GO:0004650) |
| 0.2 | 2.7 | GO:0042389 | omega-3 fatty acid desaturase activity(GO:0042389) |
| 0.1 | 2.2 | GO:0045309 | protein phosphorylated amino acid binding(GO:0045309) phosphoprotein binding(GO:0051219) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 1.2 | PID MTOR 4PATHWAY | mTOR signaling pathway |
| 0.3 | 0.9 | SIG PIP3 SIGNALING IN CARDIAC MYOCTES | Genes related to PIP3 signaling in cardiac myocytes |
| 0.2 | 0.7 | ST G ALPHA I PATHWAY | G alpha i Pathway |
| 0.2 | 0.7 | NABA SECRETED FACTORS | Genes encoding secreted soluble factors |
| 0.1 | 0.7 | PID ERBB1 DOWNSTREAM PATHWAY | ErbB1 downstream signaling |
| 0.1 | 0.5 | ST WNT BETA CATENIN PATHWAY | Wnt/beta-catenin Pathway |
| 0.1 | 0.5 | PID PLK1 PATHWAY | PLK1 signaling events |
| 0.0 | 0.4 | PID HIF1 TFPATHWAY | HIF-1-alpha transcription factor network |
| 0.0 | 0.4 | PID ATR PATHWAY | ATR signaling pathway |
| 0.1 | 0.3 | PID S1P S1P1 PATHWAY | S1P1 pathway |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 1.6 | REACTOME SYNTHESIS OF BILE ACIDS AND BILE SALTS VIA 7ALPHA HYDROXYCHOLESTEROL | Genes involved in Synthesis of bile acids and bile salts via 7alpha-hydroxycholesterol |
| 0.1 | 1.3 | REACTOME HEMOSTASIS | Genes involved in Hemostasis |
| 0.4 | 1.2 | REACTOME DEADENYLATION OF MRNA | Genes involved in Deadenylation of mRNA |
| 0.3 | 1.0 | REACTOME REGULATION OF INSULIN SECRETION | Genes involved in Regulation of Insulin Secretion |
| 0.2 | 0.7 | REACTOME RECRUITMENT OF MITOTIC CENTROSOME PROTEINS AND COMPLEXES | Genes involved in Recruitment of mitotic centrosome proteins and complexes |
| 0.1 | 0.7 | REACTOME PLATELET ACTIVATION SIGNALING AND AGGREGATION | Genes involved in Platelet activation, signaling and aggregation |
| 0.2 | 0.6 | REACTOME PREFOLDIN MEDIATED TRANSFER OF SUBSTRATE TO CCT TRIC | Genes involved in Prefoldin mediated transfer of substrate to CCT/TriC |
| 0.1 | 0.6 | REACTOME UNWINDING OF DNA | Genes involved in Unwinding of DNA |
| 0.1 | 0.5 | REACTOME ANTIVIRAL MECHANISM BY IFN STIMULATED GENES | Genes involved in Antiviral mechanism by IFN-stimulated genes |
| 0.1 | 0.4 | REACTOME NRAGE SIGNALS DEATH THROUGH JNK | Genes involved in NRAGE signals death through JNK |