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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT3G50260
Z-value: 1.61
Transcription factors associated with AT3G50260
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT3G50260
|
AT3G50260 | cooperatively regulated by ethylene and jasmonate 1 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| CEJ1 | arTal_v1_Chr3_+_18634546_18634546 | -0.20 | 4.9e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr2_-_17712290_17712330 Show fit | 4.65 |
AT2G42540.2
AT2G42540.4 AT2G42540.1 AT2G42540.3 |
cold-regulated 15a |
|
| arTal_v1_Chr5_+_5209717_5209717 Show fit | 3.91 |
AT5G15960.1
|
stress-responsive protein (KIN1) / stress-induced protein (KIN1) |
|
| arTal_v1_Chr1_+_28975255_28975255 Show fit | 3.78 |
AT1G77120.1
|
alcohol dehydrogenase 1 |
|
| arTal_v1_Chr2_-_17710433_17710433 Show fit | 3.65 |
AT2G42530.1
|
cold regulated 15b |
|
| arTal_v1_Chr5_+_21240717_21240717 Show fit | 3.20 |
AT5G52310.1
|
low-temperature-responsive protein 78 (LTI78) / desiccation-responsive protein 29A (RD29A) |
|
| arTal_v1_Chr5_-_14753088_14753088 Show fit | 2.94 |
AT5G37260.1
|
Homeodomain-like superfamily protein |
|
| arTal_v1_Chr1_+_3019639_3019639 Show fit | 2.92 |
AT1G09350.1
|
galactinol synthase 3 |
|
| arTal_v1_Chr5_-_17199793_17199910 Show fit | 2.87 |
AT5G42900.1
AT5G42900.3 AT5G42900.2 |
cold regulated protein 27 |
|
| arTal_v1_Chr1_-_10289666_10289666 Show fit | 2.84 |
AT1G29395.1
|
COLD REGULATED 314 INNER MEMBRANE 1 |
|
| arTal_v1_Chr3_+_4104463_4104463 Show fit | 2.76 |
AT3G12900.1
|
2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT3G50260
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 20.8 | GO:0006412 | translation(GO:0006412) |
| 0.3 | 19.0 | GO:0009631 | cold acclimation(GO:0009631) |
| 0.3 | 9.0 | GO:0055072 | iron ion homeostasis(GO:0055072) |
| 1.5 | 8.8 | GO:0009413 | response to flooding(GO:0009413) |
| 0.3 | 8.5 | GO:0006012 | galactose metabolic process(GO:0006012) |
| 0.7 | 6.7 | GO:0009819 | drought recovery(GO:0009819) |
| 0.5 | 6.3 | GO:0010100 | negative regulation of photomorphogenesis(GO:0010100) |
| 0.1 | 5.6 | GO:0015995 | chlorophyll biosynthetic process(GO:0015995) |
| 0.3 | 5.5 | GO:0010380 | regulation of chlorophyll biosynthetic process(GO:0010380) |
| 0.1 | 5.3 | GO:0042274 | ribosomal small subunit biogenesis(GO:0042274) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 109.2 | GO:0005829 | cytosol(GO:0005829) |
| 0.1 | 43.9 | GO:0009570 | chloroplast stroma(GO:0009570) |
| 0.0 | 26.7 | GO:0005886 | plasma membrane(GO:0005886) |
| 0.1 | 23.3 | GO:0005730 | nucleolus(GO:0005730) |
| 0.1 | 17.4 | GO:0022625 | cytosolic large ribosomal subunit(GO:0022625) |
| 0.1 | 13.3 | GO:0009579 | thylakoid(GO:0009579) |
| 0.0 | 11.2 | GO:0005783 | endoplasmic reticulum(GO:0005783) |
| 0.1 | 8.6 | GO:0022627 | cytosolic small ribosomal subunit(GO:0022627) |
| 0.1 | 8.3 | GO:0000138 | Golgi trans cisterna(GO:0000138) |
| 0.1 | 7.3 | GO:0005797 | Golgi medial cisterna(GO:0005797) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 31.7 | GO:0044822 | mRNA binding(GO:0003729) poly(A) RNA binding(GO:0044822) |
| 0.1 | 25.2 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 0.1 | 11.9 | GO:0042626 | 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 | 10.0 | GO:0008270 | zinc ion binding(GO:0008270) |
| 0.1 | 9.3 | GO:0051082 | unfolded protein binding(GO:0051082) |
| 1.0 | 8.7 | GO:0047216 | inositol 3-alpha-galactosyltransferase activity(GO:0047216) |
| 0.1 | 8.5 | GO:0003724 | RNA helicase activity(GO:0003724) |
| 0.3 | 7.8 | GO:0048029 | monosaccharide binding(GO:0048029) |
| 0.4 | 6.8 | GO:0016157 | sucrose synthase activity(GO:0016157) |
| 0.1 | 6.8 | GO:0003743 | translation initiation factor activity(GO:0003743) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.6 | 1.9 | SIG PIP3 SIGNALING IN CARDIAC MYOCTES | Genes related to PIP3 signaling in cardiac myocytes |
| 0.2 | 1.3 | PID MTOR 4PATHWAY | mTOR signaling pathway |
| 0.2 | 1.2 | PID CIRCADIAN PATHWAY | Circadian rhythm pathway |
| 0.2 | 1.2 | PID TRKR PATHWAY | Neurotrophic factor-mediated Trk receptor signaling |
| 0.1 | 1.1 | PID HIF1 TFPATHWAY | HIF-1-alpha transcription factor network |
| 0.3 | 1.0 | SIG CHEMOTAXIS | Genes related to chemotaxis |
| 0.3 | 1.0 | PID TAP63 PATHWAY | Validated transcriptional targets of TAp63 isoforms |
| 0.2 | 0.9 | ST FAS SIGNALING PATHWAY | Fas Signaling Pathway |
| 0.2 | 0.8 | PID HDAC CLASSI PATHWAY | Signaling events mediated by HDAC Class I |
| 0.2 | 0.5 | PID NFAT TFPATHWAY | Calcineurin-regulated NFAT-dependent transcription in lymphocytes |
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 |
| 0.5 | 2.2 | REACTOME SYNTHESIS OF BILE ACIDS AND BILE SALTS VIA 7ALPHA HYDROXYCHOLESTEROL | Genes involved in Synthesis of bile acids and bile salts via 7alpha-hydroxycholesterol |
| 0.3 | 2.2 | REACTOME SIGNALING BY RHO GTPASES | Genes involved in Signaling by Rho GTPases |
| 0.1 | 1.5 | REACTOME LATE PHASE OF HIV LIFE CYCLE | Genes involved in Late Phase of HIV Life Cycle |
| 0.5 | 1.4 | REACTOME FRS2 MEDIATED CASCADE | Genes involved in FRS2-mediated cascade |
| 0.2 | 1.4 | REACTOME LIPID DIGESTION MOBILIZATION AND TRANSPORT | Genes involved in Lipid digestion, mobilization, and transport |
| 0.1 | 1.4 | REACTOME ACTIVATION OF THE MRNA UPON BINDING OF THE CAP BINDING COMPLEX AND EIFS AND SUBSEQUENT BINDING TO 43S | Genes involved in Activation of the mRNA upon binding of the cap-binding complex and eIFs, and subsequent binding to 43S |
| 0.4 | 1.2 | REACTOME GLYCOSPHINGOLIPID METABOLISM | Genes involved in Glycosphingolipid metabolism |
| 0.3 | 1.2 | REACTOME BMAL1 CLOCK NPAS2 ACTIVATES CIRCADIAN EXPRESSION | Genes involved in BMAL1:CLOCK/NPAS2 Activates Circadian Expression |
| 0.4 | 1.1 | REACTOME ABACAVIR TRANSPORT AND METABOLISM | Genes involved in Abacavir transport and metabolism |