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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT1G09530
Z-value: 2.73
Transcription factors associated with AT1G09530
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT1G09530
|
AT1G09530 | phytochrome interacting factor 3 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| PIF3 | arTal_v1_Chr1_+_3076401_3076401 | 0.56 | 3.9e-02 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr1_+_6763765_6763915 Show fit | 6.03 |
AT1G19530.1
AT1G19530.2 |
DNA polymerase epsilon catalytic subunit A |
|
| arTal_v1_Chr1_-_9275193_9275193 Show fit | 5.92 |
AT1G26790.1
|
Dof-type zinc finger DNA-binding family protein |
|
| arTal_v1_Chr5_+_15878698_15878726 Show fit | 3.78 |
AT5G39660.1
AT5G39660.3 AT5G39660.2 |
cycling DOF factor 2 |
|
| arTal_v1_Chr2_-_17202848_17202848 Show fit | 3.49 |
AT2G41250.1
|
Haloacid dehalogenase-like hydrolase (HAD) superfamily protein |
|
| arTal_v1_Chr3_+_7959753_7959753 Show fit | 3.44 |
AT3G22440.1
|
FRIGIDA-like protein |
|
| arTal_v1_Chr5_+_4776733_4776733 Show fit | 3.13 |
AT5G14780.1
AT5G14780.3 AT5G14780.2 |
formate dehydrogenase |
|
| arTal_v1_Chr3_+_5243432_5243432 Show fit | 2.99 |
AT3G15510.1
|
NAC domain containing protein 2 |
|
| arTal_v1_Chr1_-_4679594_4679594 Show fit | 2.64 |
AT1G13640.2
|
Phosphatidylinositol 3- and 4-kinase family protein |
|
| arTal_v1_Chr1_-_4679862_4679862 Show fit | 2.56 |
AT1G13640.1
|
Phosphatidylinositol 3- and 4-kinase family protein |
|
| arTal_v1_Chr5_+_579744_579852 Show fit | 2.54 |
AT5G02580.1
AT5G02580.3 AT5G02580.2 |
argininosuccinate lyase |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT1G09530
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.6 | 7.4 | GO:2000071 | regulation of defense response by callose deposition(GO:2000071) |
| 0.8 | 6.0 | GO:0009061 | anaerobic respiration(GO:0009061) |
| 0.2 | 6.0 | GO:0010252 | auxin homeostasis(GO:0010252) |
| 0.1 | 4.7 | GO:0000027 | ribosomal large subunit assembly(GO:0000027) |
| 0.9 | 4.5 | GO:0046713 | borate transport(GO:0046713) |
| 0.2 | 4.4 | GO:0048768 | root hair cell tip growth(GO:0048768) |
| 1.1 | 4.3 | GO:1900409 | positive regulation of cellular response to oxidative stress(GO:1900409) |
| 0.1 | 3.8 | GO:0048510 | regulation of timing of meristematic phase transition(GO:0048506) regulation of timing of transition from vegetative to reproductive phase(GO:0048510) |
| 0.1 | 3.1 | GO:0072329 | monocarboxylic acid catabolic process(GO:0072329) |
| 0.6 | 3.0 | GO:0010360 | negative regulation of anion channel activity(GO:0010360) regulation of anion channel activity by blue light(GO:0010361) negative regulation of anion channel activity by blue light(GO:0010362) negative regulation of transporter activity(GO:0032410) negative regulation of ion transmembrane transporter activity(GO:0032413) negative regulation of transmembrane transport(GO:0034763) negative regulation of ion transmembrane transport(GO:0034766) negative regulation of anion transport(GO:1903792) negative regulation of anion transmembrane transport(GO:1903960) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 2.1 | 6.2 | GO:0016328 | lateral plasma membrane(GO:0016328) |
| 0.0 | 4.7 | GO:0022625 | cytosolic large ribosomal subunit(GO:0022625) |
| 0.2 | 3.6 | GO:0009898 | cytoplasmic side of plasma membrane(GO:0009898) |
| 0.0 | 3.1 | GO:1990204 | oxidoreductase complex(GO:1990204) |
| 0.0 | 2.9 | GO:0010287 | plastoglobule(GO:0010287) |
| 0.0 | 2.3 | GO:0009707 | chloroplast outer membrane(GO:0009707) |
| 0.1 | 2.0 | GO:0005801 | cis-Golgi network(GO:0005801) |
| 0.0 | 2.0 | GO:0019005 | SCF ubiquitin ligase complex(GO:0019005) |
| 0.2 | 1.3 | GO:0005697 | telomerase holoenzyme complex(GO:0005697) |
| 0.0 | 1.3 | GO:0005881 | cytoplasmic microtubule(GO:0005881) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 10.6 | GO:0001067 | regulatory region DNA binding(GO:0000975) transcription regulatory region sequence-specific DNA binding(GO:0000976) regulatory region nucleic acid binding(GO:0001067) transcription regulatory region DNA binding(GO:0044212) |
| 0.2 | 7.4 | GO:0050135 | NAD(P)+ nucleosidase activity(GO:0050135) |
| 0.4 | 5.2 | GO:0004430 | 1-phosphatidylinositol 4-kinase activity(GO:0004430) |
| 0.0 | 4.7 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 0.9 | 4.5 | GO:0080139 | borate transmembrane transporter activity(GO:0046715) borate efflux transmembrane transporter activity(GO:0080139) |
| 1.1 | 4.3 | GO:0019172 | glyoxalase III activity(GO:0019172) |
| 0.6 | 4.2 | GO:0010279 | indole-3-acetic acid amido synthetase activity(GO:0010279) |
| 0.0 | 3.7 | GO:0043565 | sequence-specific DNA binding(GO:0043565) |
| 0.1 | 3.6 | GO:0016620 | oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor(GO:0016620) |
| 0.1 | 3.2 | GO:0005200 | structural constituent of cytoskeleton(GO:0005200) |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 1.3 | REACTOME GLUTATHIONE CONJUGATION | Genes involved in Glutathione conjugation |
| 0.1 | 1.2 | REACTOME METABOLISM OF CARBOHYDRATES | Genes involved in Metabolism of carbohydrates |
| 0.3 | 0.9 | REACTOME HDL MEDIATED LIPID TRANSPORT | Genes involved in HDL-mediated lipid transport |
| 0.2 | 0.8 | REACTOME GOLGI ASSOCIATED VESICLE BIOGENESIS | Genes involved in Golgi Associated Vesicle Biogenesis |
| 0.1 | 0.5 | REACTOME INNATE IMMUNE SYSTEM | Genes involved in Innate Immune System |