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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT3G09600
Z-value: 1.47
Transcription factors associated with AT3G09600
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT3G09600
|
AT3G09600 | Homeodomain-like superfamily protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| RVE8 | arTal_v1_Chr3_+_2946239_2946382 | 0.60 | 2.3e-02 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr2_-_17710433_17710433 Show fit | 3.01 |
AT2G42530.1
|
cold regulated 15b |
|
| arTal_v1_Chr2_+_538250_538250 Show fit | 2.45 |
AT2G02120.1
|
Scorpion toxin-like knottin superfamily protein |
|
| arTal_v1_Chr3_-_2699257_2699257 Show fit | 2.14 |
AT3G08860.2
|
PYRIMIDINE 4 |
|
| arTal_v1_Chr5_+_21240717_21240717 Show fit | 2.12 |
AT5G52310.1
|
low-temperature-responsive protein 78 (LTI78) / desiccation-responsive protein 29A (RD29A) |
|
| arTal_v1_Chr3_-_2699420_2699420 Show fit | 2.09 |
AT3G08860.1
|
PYRIMIDINE 4 |
|
| arTal_v1_Chr5_-_7828724_7828724 Show fit | 1.98 |
AT5G23240.1
|
DNAJ heat shock N-terminal domain-containing protein |
|
| arTal_v1_Chr5_+_20151163_20151163 Show fit | 1.91 |
AT5G49640.1
|
hypothetical protein |
|
| arTal_v1_Chr5_-_17199793_17199910 Show fit | 1.83 |
AT5G42900.1
AT5G42900.3 AT5G42900.2 |
cold regulated protein 27 |
|
| arTal_v1_Chr2_+_18346306_18346306 Show fit | 1.74 |
AT2G44460.1
|
beta glucosidase 28 |
|
| arTal_v1_Chr2_+_18347765_18347765 Show fit | 1.72 |
AT2G44460.2
|
beta glucosidase 28 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT3G09600
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 10.4 | GO:0007623 | circadian rhythm(GO:0007623) rhythmic process(GO:0048511) |
| 0.1 | 6.3 | GO:0009631 | cold acclimation(GO:0009631) |
| 0.4 | 5.8 | GO:0009608 | response to symbiont(GO:0009608) |
| 0.1 | 5.3 | GO:0043562 | cellular response to nitrogen levels(GO:0043562) |
| 0.3 | 4.4 | GO:0010100 | negative regulation of photomorphogenesis(GO:0010100) |
| 0.2 | 4.1 | GO:0005983 | starch catabolic process(GO:0005983) |
| 0.1 | 3.9 | GO:0019759 | S-glycoside catabolic process(GO:0016145) glycosinolate catabolic process(GO:0019759) glucosinolate catabolic process(GO:0019762) |
| 0.1 | 3.9 | GO:0010224 | response to UV-B(GO:0010224) |
| 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) |
| 0.6 | 3.6 | GO:0009413 | response to flooding(GO:0009413) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 37.2 | GO:0005829 | cytosol(GO:0005829) |
| 0.0 | 18.3 | GO:0009570 | chloroplast stroma(GO:0009570) |
| 0.1 | 17.5 | GO:0009534 | chloroplast thylakoid(GO:0009534) |
| 0.1 | 13.1 | GO:0000790 | nuclear chromatin(GO:0000790) |
| 0.1 | 6.8 | GO:0009707 | chloroplast outer membrane(GO:0009707) |
| 0.1 | 4.8 | GO:0031977 | thylakoid lumen(GO:0031977) |
| 0.0 | 4.5 | GO:0005777 | peroxisome(GO:0005777) microbody(GO:0042579) |
| 0.1 | 3.6 | GO:0010287 | plastoglobule(GO:0010287) |
| 0.1 | 3.0 | GO:0098807 | chloroplast thylakoid membrane protein complex(GO:0098807) |
| 0.1 | 2.9 | GO:0010319 | stromule(GO:0010319) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 16.1 | GO:0001071 | nucleic acid binding transcription factor activity(GO:0001071) transcription factor activity, sequence-specific DNA binding(GO:0003700) |
| 0.1 | 10.6 | GO:0000978 | RNA polymerase II core promoter proximal region sequence-specific DNA binding(GO:0000978) |
| 0.1 | 7.2 | GO:0102483 | scopolin beta-glucosidase activity(GO:0102483) |
| 0.0 | 5.7 | GO:0043531 | ADP binding(GO:0043531) |
| 0.1 | 5.0 | GO:0003724 | RNA helicase activity(GO:0003724) |
| 0.7 | 4.8 | GO:0016781 | phosphotransferase activity, paired acceptors(GO:0016781) |
| 0.4 | 4.2 | GO:0008453 | alanine-glyoxylate transaminase activity(GO:0008453) |
| 0.1 | 3.7 | GO:0000156 | phosphorelay response regulator activity(GO:0000156) |
| 0.1 | 3.4 | GO:0050135 | NAD(P)+ nucleosidase activity(GO:0050135) |
| 0.1 | 3.2 | GO:0016597 | amino acid binding(GO:0016597) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 1.7 | PID HIF1 TFPATHWAY | HIF-1-alpha transcription factor network |
| 0.1 | 1.0 | PID MTOR 4PATHWAY | mTOR signaling pathway |
| 0.2 | 0.9 | PID AP1 PATHWAY | AP-1 transcription factor network |
| 0.2 | 0.6 | PID IL2 PI3K PATHWAY | IL2 signaling events mediated by PI3K |
| 0.1 | 0.6 | PID S1P S1P1 PATHWAY | S1P1 pathway |
| 0.1 | 0.6 | SIG INSULIN RECEPTOR PATHWAY IN CARDIAC MYOCYTES | Genes related to the insulin receptor pathway |
| 0.2 | 0.5 | ST PAC1 RECEPTOR PATHWAY | PAC1 Receptor Pathway |
| 0.1 | 0.5 | PID CIRCADIAN PATHWAY | Circadian rhythm pathway |
| 0.1 | 0.5 | PID E2F PATHWAY | E2F transcription factor network |
| 0.1 | 0.4 | PID VEGF VEGFR PATHWAY | VEGF and VEGFR signaling network |
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 |
| 0.3 | 1.3 | REACTOME RECRUITMENT OF MITOTIC CENTROSOME PROTEINS AND COMPLEXES | Genes involved in Recruitment of mitotic centrosome proteins and complexes |
| 0.3 | 1.3 | REACTOME SYNTHESIS OF BILE ACIDS AND BILE SALTS | Genes involved in Synthesis of bile acids and bile salts |
| 0.4 | 1.2 | REACTOME MRNA DECAY BY 5 TO 3 EXORIBONUCLEASE | Genes involved in mRNA Decay by 5' to 3' Exoribonuclease |
| 0.4 | 1.1 | REACTOME ABACAVIR TRANSPORT AND METABOLISM | Genes involved in Abacavir transport and metabolism |
| 0.0 | 1.0 | REACTOME ABC FAMILY PROTEINS MEDIATED TRANSPORT | Genes involved in ABC-family proteins mediated transport |
| 0.1 | 0.9 | REACTOME INTERFERON SIGNALING | Genes involved in Interferon Signaling |
| 0.0 | 0.8 | REACTOME FACTORS INVOLVED IN MEGAKARYOCYTE DEVELOPMENT AND PLATELET PRODUCTION | Genes involved in Factors involved in megakaryocyte development and platelet production |
| 0.2 | 0.7 | REACTOME PEROXISOMAL LIPID METABOLISM | Genes involved in Peroxisomal lipid metabolism |
| 0.0 | 0.7 | REACTOME FORMATION OF THE TERNARY COMPLEX AND SUBSEQUENTLY THE 43S COMPLEX | Genes involved in Formation of the ternary complex, and subsequently, the 43S complex |