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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT5G51990
Z-value: 1.88
Transcription factors associated with AT5G51990
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT5G51990
|
AT5G51990 | C-repeat-binding factor 4 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| CBF4 | arTal_v1_Chr5_-_21117860_21117860 | 0.52 | 5.7e-02 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr2_-_17712290_17712330 Show fit | 5.62 |
AT2G42540.2
AT2G42540.4 AT2G42540.1 AT2G42540.3 |
cold-regulated 15a |
|
| arTal_v1_Chr5_+_5209717_5209717 Show fit | 4.53 |
AT5G15960.1
|
stress-responsive protein (KIN1) / stress-induced protein (KIN1) |
|
| arTal_v1_Chr2_-_17710433_17710433 Show fit | 4.49 |
AT2G42530.1
|
cold regulated 15b |
|
| arTal_v1_Chr1_+_28975255_28975255 Show fit | 4.02 |
AT1G77120.1
|
alcohol dehydrogenase 1 |
|
| arTal_v1_Chr5_+_21240717_21240717 Show fit | 3.83 |
AT5G52310.1
|
low-temperature-responsive protein 78 (LTI78) / desiccation-responsive protein 29A (RD29A) |
|
| arTal_v1_Chr1_+_3019639_3019639 Show fit | 3.55 |
AT1G09350.1
|
galactinol synthase 3 |
|
| arTal_v1_Chr5_-_22712441_22712441 Show fit | 3.44 |
AT5G56080.1
|
nicotianamine synthase 2 |
|
| arTal_v1_Chr1_-_10289666_10289666 Show fit | 3.39 |
AT1G29395.1
|
COLD REGULATED 314 INNER MEMBRANE 1 |
|
| arTal_v1_Chr1_+_3020221_3020221 Show fit | 3.33 |
AT1G09350.2
|
galactinol synthase 3 |
|
| arTal_v1_Chr3_+_18940643_18940643 Show fit | 3.32 |
AT3G50970.1
|
dehydrin family protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT5G51990
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 26.5 | GO:0009631 | cold acclimation(GO:0009631) |
| 0.0 | 12.6 | GO:0006412 | translation(GO:0006412) |
| 0.4 | 12.0 | GO:0006012 | galactose metabolic process(GO:0006012) |
| 1.6 | 9.7 | GO:0009413 | response to flooding(GO:0009413) |
| 0.9 | 8.4 | GO:0009819 | drought recovery(GO:0009819) |
| 0.6 | 8.0 | GO:0009608 | response to symbiont(GO:0009608) |
| 0.5 | 6.8 | GO:0010100 | negative regulation of photomorphogenesis(GO:0010100) |
| 0.2 | 6.0 | GO:0055072 | iron ion homeostasis(GO:0055072) |
| 0.1 | 6.0 | GO:0009658 | chloroplast organization(GO:0009658) |
| 0.2 | 5.8 | GO:0042026 | protein refolding(GO:0042026) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 161.3 | GO:0005829 | cytosol(GO:0005829) |
| 0.1 | 37.7 | GO:0009570 | chloroplast stroma(GO:0009570) |
| 0.1 | 30.8 | GO:0005730 | nucleolus(GO:0005730) |
| 0.0 | 21.3 | GO:0005886 | plasma membrane(GO:0005886) |
| 0.2 | 9.4 | GO:0009707 | chloroplast outer membrane(GO:0009707) |
| 0.0 | 9.4 | GO:0009506 | cell-cell junction(GO:0005911) plasmodesma(GO:0009506) cell junction(GO:0030054) symplast(GO:0055044) |
| 0.0 | 8.9 | GO:0005802 | trans-Golgi network(GO:0005802) |
| 0.1 | 8.7 | GO:0009524 | phragmoplast(GO:0009524) |
| 0.0 | 8.7 | GO:0005789 | endoplasmic reticulum membrane(GO:0005789) |
| 0.0 | 8.5 | GO:0005774 | vacuolar membrane(GO:0005774) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 15.3 | GO:0044822 | mRNA binding(GO:0003729) poly(A) RNA binding(GO:0044822) |
| 0.1 | 14.8 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 1.3 | 12.1 | GO:0047216 | inositol 3-alpha-galactosyltransferase activity(GO:0047216) |
| 0.0 | 11.6 | GO:0008270 | zinc ion binding(GO:0008270) |
| 0.3 | 9.2 | GO:0048029 | monosaccharide binding(GO:0048029) |
| 0.1 | 8.8 | GO:0051082 | unfolded protein binding(GO:0051082) |
| 0.1 | 8.1 | GO:0003724 | RNA helicase activity(GO:0003724) |
| 0.2 | 8.0 | GO:0050135 | NAD(P)+ nucleosidase activity(GO:0050135) |
| 0.0 | 8.0 | GO:0042803 | protein homodimerization activity(GO:0042803) |
| 0.1 | 7.9 | GO:0102483 | scopolin beta-glucosidase activity(GO:0102483) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 1.8 | PID CIRCADIAN PATHWAY | Circadian rhythm pathway |
| 0.5 | 1.4 | PID TCR JNK PATHWAY | JNK signaling in the CD4+ TCR pathway |
| 0.2 | 1.3 | PID AP1 PATHWAY | AP-1 transcription factor network |
| 0.2 | 1.2 | PID S1P META PATHWAY | Sphingosine 1-phosphate (S1P) pathway |
| 0.2 | 1.1 | PID MTOR 4PATHWAY | mTOR signaling pathway |
| 0.1 | 1.1 | PID ATR PATHWAY | ATR signaling pathway |
| 0.3 | 1.0 | PID RET PATHWAY | Signaling events regulated by Ret tyrosine kinase |
| 0.2 | 0.7 | PID HNF3B PATHWAY | FOXA2 and FOXA3 transcription factor networks |
| 0.1 | 0.6 | PID AJDISS 2PATHWAY | Posttranslational regulation of adherens junction stability and dissassembly |
| 0.1 | 0.6 | PID HIF1 TFPATHWAY | HIF-1-alpha transcription factor network |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.7 | 5.0 | REACTOME GABA SYNTHESIS RELEASE REUPTAKE AND DEGRADATION | Genes involved in GABA synthesis, release, reuptake and degradation |
| 0.7 | 3.0 | REACTOME RECRUITMENT OF MITOTIC CENTROSOME PROTEINS AND COMPLEXES | Genes involved in Recruitment of mitotic centrosome proteins and complexes |
| 0.1 | 2.6 | REACTOME TRANSMEMBRANE TRANSPORT OF SMALL MOLECULES | Genes involved in Transmembrane transport of small molecules |
| 0.6 | 2.4 | REACTOME PROLONGED ERK ACTIVATION EVENTS | Genes involved in Prolonged ERK activation events |
| 0.1 | 2.0 | REACTOME SRP DEPENDENT COTRANSLATIONAL PROTEIN TARGETING TO MEMBRANE | Genes involved in SRP-dependent cotranslational protein targeting to membrane |
| 0.4 | 1.8 | REACTOME BMAL1 CLOCK NPAS2 ACTIVATES CIRCADIAN EXPRESSION | Genes involved in BMAL1:CLOCK/NPAS2 Activates Circadian Expression |
| 0.5 | 1.6 | REACTOME ABACAVIR TRANSPORT AND METABOLISM | Genes involved in Abacavir transport and metabolism |
| 0.3 | 1.6 | REACTOME LIPID DIGESTION MOBILIZATION AND TRANSPORT | Genes involved in Lipid digestion, mobilization, and transport |
| 0.3 | 1.5 | REACTOME L1CAM INTERACTIONS | Genes involved in L1CAM interactions |
| 0.1 | 1.5 | REACTOME METABOLISM OF CARBOHYDRATES | Genes involved in Metabolism of carbohydrates |