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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT2G40260
Z-value: 1.58
Transcription factors associated with AT2G40260
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT2G40260
|
AT2G40260 | Homeodomain-like superfamily protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| AT2G40260 | arTal_v1_Chr2_-_16818730_16818730 | -0.39 | 1.6e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr4_+_2449434_2449434 Show fit | 2.35 |
AT4G04840.1
|
methionine sulfoxide reductase B6 |
|
| arTal_v1_Chr4_+_6826587_6826587 Show fit | 2.03 |
AT4G11190.1
|
Disease resistance-responsive (dirigent-like protein) family protein |
|
| arTal_v1_Chr1_-_4835089_4835089 Show fit | 1.97 |
AT1G14120.2
AT1G14120.1 AT1G14120.3 |
2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily protein |
|
| arTal_v1_Chr3_-_11194897_11194993 Show fit | 1.90 |
AT3G29250.2
AT3G29250.1 |
NAD(P)-binding Rossmann-fold superfamily protein |
|
| arTal_v1_Chr1_-_2747936_2747967 Show fit | 1.83 |
AT1G08630.6
AT1G08630.7 AT1G08630.5 AT1G08630.2 |
threonine aldolase 1 |
|
| arTal_v1_Chr2_-_8533779_8533779 Show fit | 1.73 |
AT2G19800.1
|
myo-inositol oxygenase 2 |
|
| arTal_v1_Chr1_+_12851983_12851983 Show fit | 1.73 |
AT1G35140.1
|
Phosphate-responsive 1 family protein |
|
| arTal_v1_Chr3_-_12451556_12451556 Show fit | 1.71 |
AT3G30775.2
AT3G30775.1 |
Methylenetetrahydrofolate reductase family protein |
|
| arTal_v1_Chr1_-_7391603_7391603 Show fit | 1.64 |
AT1G21110.1
|
O-methyltransferase family protein |
|
| arTal_v1_Chr4_-_9754161_9754161 Show fit | 1.62 |
AT4G17490.1
|
ethylene responsive element binding factor 6 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT2G40260
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.8 | 5.0 | GO:0006567 | threonine catabolic process(GO:0006567) |
| 0.0 | 5.0 | GO:0071456 | cellular response to hypoxia(GO:0071456) |
| 0.1 | 4.8 | GO:0010087 | phloem or xylem histogenesis(GO:0010087) |
| 0.2 | 4.1 | GO:0030091 | protein repair(GO:0030091) |
| 0.6 | 2.9 | GO:0019310 | inositol catabolic process(GO:0019310) |
| 0.2 | 2.8 | GO:0009970 | cellular response to sulfate starvation(GO:0009970) |
| 0.1 | 2.3 | GO:0043562 | cellular response to nitrogen levels(GO:0043562) |
| 0.0 | 2.2 | GO:0009860 | pollen tube growth(GO:0009860) |
| 0.1 | 2.0 | GO:0015833 | oligopeptide transport(GO:0006857) peptide transport(GO:0015833) |
| 0.1 | 2.0 | GO:0009556 | microsporogenesis(GO:0009556) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 2.5 | GO:0031588 | nucleotide-activated protein kinase complex(GO:0031588) |
| 0.1 | 2.2 | GO:0010319 | stromule(GO:0010319) |
| 0.0 | 1.0 | GO:0012511 | monolayer-surrounded lipid storage body(GO:0012511) |
| 0.3 | 0.9 | GO:0030015 | CCR4-NOT core complex(GO:0030015) |
| 0.2 | 0.9 | GO:0030062 | mitochondrial alpha-ketoglutarate dehydrogenase complex(GO:0005947) mitochondrial tricarboxylic acid cycle enzyme complex(GO:0030062) |
| 0.1 | 0.7 | GO:0030139 | endocytic vesicle(GO:0030139) |
| 0.1 | 0.7 | GO:0045298 | tubulin complex(GO:0045298) |
| 0.0 | 0.7 | GO:0016324 | apical plasma membrane(GO:0016324) |
| 0.1 | 0.6 | GO:0005968 | Rab-protein geranylgeranyltransferase complex(GO:0005968) |
| 0.1 | 0.6 | GO:0000127 | transcription factor TFIIIC complex(GO:0000127) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.0 | 5.0 | GO:0004793 | threonine aldolase activity(GO:0004793) L-allo-threonine aldolase activity(GO:0008732) |
| 0.5 | 5.0 | GO:0033743 | peptide-methionine (R)-S-oxide reductase activity(GO:0033743) |
| 0.0 | 3.2 | GO:0000977 | RNA polymerase II regulatory region sequence-specific DNA binding(GO:0000977) RNA polymerase II regulatory region DNA binding(GO:0001012) |
| 0.1 | 3.1 | GO:0008171 | O-methyltransferase activity(GO:0008171) |
| 0.6 | 2.9 | GO:0050113 | inositol oxygenase activity(GO:0050113) |
| 0.0 | 2.3 | GO:0046910 | pectinesterase inhibitor activity(GO:0046910) |
| 0.5 | 2.1 | GO:0048030 | disaccharide binding(GO:0048030) maltose binding(GO:1901982) |
| 0.1 | 2.0 | GO:0015145 | monosaccharide transmembrane transporter activity(GO:0015145) |
| 0.1 | 2.0 | GO:0016645 | oxidoreductase activity, acting on the CH-NH group of donors(GO:0016645) |
| 0.0 | 2.0 | GO:0015144 | carbohydrate transmembrane transporter activity(GO:0015144) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 1.5 | NABA ECM GLYCOPROTEINS | Genes encoding structural ECM glycoproteins |
| 0.2 | 0.6 | PID IL12 2PATHWAY | IL12-mediated signaling events |
| 0.1 | 0.4 | PID CDC42 PATHWAY | CDC42 signaling events |
| 0.1 | 0.3 | PID AP1 PATHWAY | AP-1 transcription factor network |
| 0.0 | 0.2 | PID ATM PATHWAY | ATM pathway |
| 0.0 | 0.2 | PID FANCONI PATHWAY | Fanconi anemia pathway |
| 0.0 | 0.1 | PID AVB3 INTEGRIN PATHWAY | Integrins in angiogenesis |
| 0.0 | 0.1 | SA G1 AND S PHASES | Cdk2, 4, and 6 bind cyclin D in G1, while cdk2/cyclin E promotes the G1/S transition. |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 1.0 | REACTOME CHEMOKINE RECEPTORS BIND CHEMOKINES | Genes involved in Chemokine receptors bind chemokines |
| 0.1 | 0.7 | REACTOME ASPARAGINE N LINKED GLYCOSYLATION | Genes involved in Asparagine N-linked glycosylation |
| 0.2 | 0.6 | REACTOME MITOTIC PROMETAPHASE | Genes involved in Mitotic Prometaphase |
| 0.1 | 0.6 | REACTOME REVERSIBLE HYDRATION OF CARBON DIOXIDE | Genes involved in Reversible Hydration of Carbon Dioxide |
| 0.0 | 0.4 | REACTOME MEIOSIS | Genes involved in Meiosis |
| 0.1 | 0.3 | REACTOME BIOLOGICAL OXIDATIONS | Genes involved in Biological oxidations |
| 0.1 | 0.3 | REACTOME NUCLEAR SIGNALING BY ERBB4 | Genes involved in Nuclear signaling by ERBB4 |
| 0.0 | 0.3 | REACTOME TRANSCRIPTION | Genes involved in Transcription |
| 0.0 | 0.2 | REACTOME MHC CLASS II ANTIGEN PRESENTATION | Genes involved in MHC class II antigen presentation |
| 0.1 | 0.1 | REACTOME SYNTHESIS OF PIPS AT THE GOLGI MEMBRANE | Genes involved in Synthesis of PIPs at the Golgi membrane |