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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT3G55370
Z-value: 1.17
Transcription factors associated with AT3G55370
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT3G55370
|
AT3G55370 | OBF-binding protein 3 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| OBP3 | arTal_v1_Chr3_+_20527063_20527063 | -0.21 | 4.8e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr5_-_23308680_23308680 Show fit | 1.81 |
AT5G57560.1
|
Xyloglucan endotransglucosylase/hydrolase family protein |
|
| arTal_v1_Chr1_+_12851983_12851983 Show fit | 1.51 |
AT1G35140.1
|
Phosphate-responsive 1 family protein |
|
| arTal_v1_Chr4_+_18413775_18413775 Show fit | 1.14 |
AT4G39675.1
|
hypothetical protein |
|
| arTal_v1_Chr1_+_28053030_28053030 Show fit | 1.09 |
AT1G74670.1
|
Gibberellin-regulated family protein |
|
| arTal_v1_Chr1_+_7696427_7696427 Show fit | 1.04 |
AT1G21910.1
|
Integrase-type DNA-binding superfamily protein |
|
| arTal_v1_Chr5_+_5237970_5238178 Show fit | 1.02 |
AT5G16030.1
AT5G16030.4 AT5G16030.2 AT5G16030.3 |
mental retardation GTPase activating protein |
|
| arTal_v1_Chr1_-_11972580_11972580 Show fit | 0.91 |
AT1G33055.1
|
hypothetical protein |
|
| arTal_v1_Chr3_+_8918679_8918679 Show fit | 0.88 |
AT3G24500.2
|
multiprotein bridging factor 1C |
|
| arTal_v1_Chr3_+_8918267_8918267 Show fit | 0.88 |
AT3G24500.1
|
multiprotein bridging factor 1C |
|
| arTal_v1_Chr5_-_8186662_8186704 Show fit | 0.86 |
AT5G24160.2
AT5G24160.1 |
squalene monooxygenase 6 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT3G55370
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 10.7 | GO:0071456 | cellular response to hypoxia(GO:0071456) |
| 0.1 | 8.4 | GO:0010200 | response to chitin(GO:0010200) |
| 0.3 | 2.3 | GO:0009061 | anaerobic respiration(GO:0009061) |
| 0.0 | 2.2 | GO:0009809 | lignin biosynthetic process(GO:0009809) |
| 0.0 | 2.0 | GO:0007018 | microtubule-based movement(GO:0007018) |
| 0.1 | 1.9 | GO:0070413 | trehalose metabolism in response to stress(GO:0070413) |
| 0.2 | 1.8 | GO:0051513 | regulation of monopolar cell growth(GO:0051513) |
| 0.0 | 1.8 | GO:0031146 | SCF-dependent proteasomal ubiquitin-dependent protein catabolic process(GO:0031146) |
| 0.0 | 1.6 | GO:0007267 | cell-cell signaling(GO:0007267) |
| 0.1 | 1.5 | GO:0048859 | formation of organ boundary(GO:0010160) formation of anatomical boundary(GO:0048859) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 2.2 | GO:0019005 | SCF ubiquitin ligase complex(GO:0019005) |
| 0.2 | 1.8 | GO:0031588 | nucleotide-activated protein kinase complex(GO:0031588) |
| 0.0 | 1.7 | GO:0005887 | integral component of plasma membrane(GO:0005887) |
| 0.0 | 1.2 | GO:0031201 | SNARE complex(GO:0031201) |
| 0.1 | 1.0 | GO:0005801 | cis-Golgi network(GO:0005801) |
| 0.1 | 0.9 | GO:0005677 | chromatin silencing complex(GO:0005677) |
| 0.0 | 0.9 | GO:0031977 | thylakoid lumen(GO:0031977) |
| 0.0 | 0.9 | GO:0009706 | chloroplast inner membrane(GO:0009706) |
| 0.1 | 0.8 | GO:0090576 | RNA polymerase III transcription factor complex(GO:0090576) |
| 0.1 | 0.8 | GO:0005885 | Arp2/3 protein complex(GO:0005885) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 16.6 | GO:0003700 | nucleic acid binding transcription factor activity(GO:0001071) transcription factor activity, sequence-specific DNA binding(GO:0003700) |
| 0.0 | 7.1 | GO:0043531 | ADP binding(GO:0043531) |
| 0.0 | 4.4 | GO:0000977 | RNA polymerase II regulatory region sequence-specific DNA binding(GO:0000977) RNA polymerase II regulatory region DNA binding(GO:0001012) |
| 0.0 | 4.1 | GO:0000978 | RNA polymerase II core promoter proximal region sequence-specific DNA binding(GO:0000978) |
| 0.1 | 3.2 | GO:0003713 | transcription coactivator activity(GO:0003713) |
| 0.0 | 3.0 | GO:0051015 | actin filament binding(GO:0051015) |
| 0.0 | 2.3 | GO:0003777 | microtubule motor activity(GO:0003777) |
| 0.1 | 1.9 | GO:0003825 | alpha,alpha-trehalose-phosphate synthase (UDP-forming) activity(GO:0003825) |
| 0.0 | 1.8 | GO:0005484 | SNAP receptor activity(GO:0005484) |
| 0.1 | 1.6 | GO:0005452 | inorganic anion exchanger activity(GO:0005452) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 0.5 | PID HES HEY PATHWAY | Notch-mediated HES/HEY network |
| 0.1 | 0.5 | PID CDC42 PATHWAY | CDC42 signaling events |
| 0.1 | 0.4 | SA G1 AND S PHASES | Cdk2, 4, and 6 bind cyclin D in G1, while cdk2/cyclin E promotes the G1/S transition. |
| 0.1 | 0.3 | PID HIF1A PATHWAY | Hypoxic and oxygen homeostasis regulation of HIF-1-alpha |
| 0.0 | 0.3 | PID ATM PATHWAY | ATM pathway |
| 0.1 | 0.2 | PID NECTIN PATHWAY | Nectin adhesion pathway |
| 0.0 | 0.1 | PID PDGFRA PATHWAY | PDGFR-alpha signaling pathway |
| 0.0 | 0.1 | PID CIRCADIAN PATHWAY | Circadian rhythm pathway |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 0.4 | REACTOME FORMATION OF TUBULIN FOLDING INTERMEDIATES BY CCT TRIC | Genes involved in Formation of tubulin folding intermediates by CCT/TriC |
| 0.1 | 0.3 | REACTOME OXYGEN DEPENDENT PROLINE HYDROXYLATION OF HYPOXIA INDUCIBLE FACTOR ALPHA | Genes involved in Oxygen-dependent Proline Hydroxylation of Hypoxia-inducible Factor Alpha |
| 0.1 | 0.3 | REACTOME MRNA DECAY BY 5 TO 3 EXORIBONUCLEASE | Genes involved in mRNA Decay by 5' to 3' Exoribonuclease |
| 0.1 | 0.3 | 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 | 0.3 | REACTOME FORMATION OF INCISION COMPLEX IN GG NER | Genes involved in Formation of incision complex in GG-NER |
| 0.0 | 0.3 | REACTOME BIOLOGICAL OXIDATIONS | Genes involved in Biological oxidations |
| 0.1 | 0.2 | REACTOME G2 M DNA DAMAGE CHECKPOINT | Genes involved in G2/M DNA damage checkpoint |
| 0.1 | 0.2 | REACTOME SYNTHESIS OF PIPS AT THE GOLGI MEMBRANE | Genes involved in Synthesis of PIPs at the Golgi membrane |
| 0.1 | 0.2 | REACTOME ARMS MEDIATED ACTIVATION | Genes involved in ARMS-mediated activation |
| 0.0 | 0.2 | REACTOME GLUCOSE METABOLISM | Genes involved in Glucose metabolism |