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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT3G52440
Z-value: 0.68
Transcription factors associated with AT3G52440
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT3G52440
|
AT3G52440 | Dof-type zinc finger DNA-binding family protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| AT3G52440 | arTal_v1_Chr3_+_19435447_19435447 | -0.12 | 6.9e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr1_+_9829261_9829261 Show fit | 2.00 |
AT1G28135.1
|
hypothetical protein |
|
| arTal_v1_Chr5_-_19542760_19542760 Show fit | 0.95 |
AT5G48180.1
|
nitrile specifier protein 5 |
|
| arTal_v1_Chr2_-_7919345_7919345 Show fit | 0.94 |
AT2G18193.1
|
P-loop containing nucleoside triphosphate hydrolases superfamily protein |
|
| arTal_v1_Chr2_+_18347765_18347765 Show fit | 0.92 |
AT2G44460.2
|
beta glucosidase 28 |
|
| arTal_v1_Chr2_+_18346306_18346306 Show fit | 0.91 |
AT2G44460.1
|
beta glucosidase 28 |
|
| arTal_v1_Chr1_+_28053030_28053030 Show fit | 0.85 |
AT1G74670.1
|
Gibberellin-regulated family protein |
|
| arTal_v1_Chr5_-_8181107_8181107 Show fit | 0.82 |
AT5G24155.2
AT5G24155.3 AT5G24155.1 |
FAD/NAD(P)-binding oxidoreductase family protein |
|
| arTal_v1_Chr1_+_16470872_16470872 Show fit | 0.81 |
AT1G43675.1
|
|
|
| arTal_v1_Chr5_+_19183523_19183571 Show fit | 0.80 |
AT5G47240.2
AT5G47240.1 |
nudix hydrolase homolog 8 |
|
| arTal_v1_Chr2_-_1007186_1007186 Show fit | 0.75 |
AT2G03310.1
|
transmembrane protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT3G52440
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 3.2 | GO:0019759 | S-glycoside catabolic process(GO:0016145) glycosinolate catabolic process(GO:0019759) glucosinolate catabolic process(GO:0019762) |
| 0.0 | 1.7 | GO:0010200 | response to chitin(GO:0010200) |
| 0.0 | 1.2 | GO:0048544 | recognition of pollen(GO:0048544) |
| 0.1 | 1.1 | GO:0001676 | long-chain fatty acid metabolic process(GO:0001676) |
| 0.2 | 1.0 | GO:1902418 | (+)-abscisic acid D-glucopyranosyl ester transmembrane transport(GO:1902418) |
| 0.1 | 1.0 | GO:0042851 | alanine metabolic process(GO:0006522) alanine catabolic process(GO:0006524) pyruvate family amino acid metabolic process(GO:0009078) pyruvate family amino acid catabolic process(GO:0009080) L-alanine metabolic process(GO:0042851) L-alanine catabolic process(GO:0042853) |
| 0.1 | 1.0 | GO:0080028 | nitrile metabolic process(GO:0050898) nitrile biosynthetic process(GO:0080028) |
| 0.1 | 1.0 | GO:0009750 | response to fructose(GO:0009750) |
| 0.0 | 1.0 | GO:0006887 | exocytosis(GO:0006887) |
| 0.1 | 0.9 | GO:2000779 | regulation of double-strand break repair(GO:2000779) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 1.9 | GO:0000790 | nuclear chromatin(GO:0000790) |
| 0.0 | 1.2 | GO:0019005 | SCF ubiquitin ligase complex(GO:0019005) |
| 0.0 | 0.8 | GO:0035097 | histone methyltransferase complex(GO:0035097) |
| 0.0 | 0.8 | GO:0005684 | U2-type spliceosomal complex(GO:0005684) |
| 0.0 | 0.7 | GO:0016592 | mediator complex(GO:0016592) |
| 0.0 | 0.7 | GO:0031201 | SNARE complex(GO:0031201) |
| 0.0 | 0.7 | GO:0009524 | phragmoplast(GO:0009524) |
| 0.1 | 0.6 | GO:0035267 | NuA4 histone acetyltransferase complex(GO:0035267) H4/H2A histone acetyltransferase complex(GO:0043189) H4 histone acetyltransferase complex(GO:1902562) |
| 0.1 | 0.5 | GO:0043078 | megasporocyte nucleus(GO:0043076) polar nucleus(GO:0043078) |
| 0.0 | 0.4 | GO:0000243 | commitment complex(GO:0000243) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 2.4 | GO:0102483 | scopolin beta-glucosidase activity(GO:0102483) |
| 0.0 | 2.4 | GO:0000978 | RNA polymerase II core promoter proximal region sequence-specific DNA binding(GO:0000978) |
| 0.0 | 2.4 | GO:0043531 | ADP binding(GO:0043531) |
| 0.0 | 1.8 | GO:0051015 | actin filament binding(GO:0051015) |
| 0.0 | 1.7 | GO:0003713 | transcription coactivator activity(GO:0003713) |
| 0.0 | 1.3 | GO:0004601 | peroxidase activity(GO:0004601) |
| 0.1 | 1.1 | GO:0004506 | squalene monooxygenase activity(GO:0004506) |
| 0.1 | 1.1 | GO:0000996 | core DNA-dependent RNA polymerase binding promoter specificity activity(GO:0000996) sigma factor activity(GO:0016987) |
| 0.1 | 1.1 | GO:0008559 | xenobiotic-transporting ATPase activity(GO:0008559) |
| 0.2 | 1.0 | GO:0046577 | long-chain-alcohol oxidase activity(GO:0046577) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 0.4 | PID VEGF VEGFR PATHWAY | VEGF and VEGFR signaling network |
| 0.1 | 0.3 | PID BARD1 PATHWAY | BARD1 signaling events |
| 0.0 | 0.3 | PID IL2 PI3K PATHWAY | IL2 signaling events mediated by PI3K |
| 0.0 | 0.1 | PID TAP63 PATHWAY | Validated transcriptional targets of TAp63 isoforms |
| 0.0 | 0.1 | SA CASPASE CASCADE | Apoptosis is mediated by caspases, cysteine proteases arranged in a proteolytic cascade. |
| 0.0 | 0.1 | PID S1P S1P1 PATHWAY | S1P1 pathway |
| 0.0 | 0.1 | PID ATF2 PATHWAY | ATF-2 transcription factor network |
| 0.0 | 0.1 | PID HIF2PATHWAY | HIF-2-alpha transcription factor network |
| 0.0 | 0.1 | PID ERBB1 DOWNSTREAM PATHWAY | ErbB1 downstream signaling |
| 0.0 | 0.1 | PID ATR PATHWAY | ATR signaling pathway |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 0.5 | REACTOME DOUBLE STRAND BREAK REPAIR | Genes involved in Double-Strand Break Repair |
| 0.0 | 0.5 | REACTOME ABC FAMILY PROTEINS MEDIATED TRANSPORT | Genes involved in ABC-family proteins mediated transport |
| 0.1 | 0.4 | REACTOME SEMAPHORIN INTERACTIONS | Genes involved in Semaphorin interactions |
| 0.1 | 0.4 | REACTOME RECYCLING OF BILE ACIDS AND SALTS | Genes involved in Recycling of bile acids and salts |
| 0.0 | 0.4 | REACTOME PPARA ACTIVATES GENE EXPRESSION | Genes involved in PPARA Activates Gene Expression |
| 0.1 | 0.3 | REACTOME GLUTATHIONE CONJUGATION | Genes involved in Glutathione conjugation |
| 0.1 | 0.3 | REACTOME PKB MEDIATED EVENTS | Genes involved in PKB-mediated events |
| 0.0 | 0.2 | REACTOME GOLGI ASSOCIATED VESICLE BIOGENESIS | Genes involved in Golgi Associated Vesicle Biogenesis |
| 0.0 | 0.1 | REACTOME BIOSYNTHESIS OF THE N GLYCAN PRECURSOR DOLICHOL LIPID LINKED OLIGOSACCHARIDE LLO AND TRANSFER TO A NASCENT PROTEIN | Genes involved in Biosynthesis of the N-glycan precursor (dolichol lipid-linked oligosaccharide, LLO) and transfer to a nascent protein |
| 0.0 | 0.1 | REACTOME SIGNALING BY TGF BETA RECEPTOR COMPLEX | Genes involved in Signaling by TGF-beta Receptor Complex |