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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT5G16820
Z-value: 3.59
Transcription factors associated with AT5G16820
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT5G16820
|
AT5G16820 | heat shock factor 3 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| HSF3 | arTal_v1_Chr5_+_5530195_5530197 | 0.83 | 2.5e-04 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr5_+_5209717_5209717 Show fit | 6.28 |
AT5G15960.1
|
stress-responsive protein (KIN1) / stress-induced protein (KIN1) |
|
| arTal_v1_Chr3_+_4729399_4729438 Show fit | 5.31 |
AT3G14210.1
AT3G14210.2 |
GDSL-like lipase/acylhydrolase superfamily protein |
|
| arTal_v1_Chr3_-_2699257_2699257 Show fit | 4.76 |
AT3G08860.2
|
PYRIMIDINE 4 |
|
| arTal_v1_Chr5_+_21240717_21240717 Show fit | 4.75 |
AT5G52310.1
|
low-temperature-responsive protein 78 (LTI78) / desiccation-responsive protein 29A (RD29A) |
|
| arTal_v1_Chr3_-_2699420_2699420 Show fit | 4.67 |
AT3G08860.1
|
PYRIMIDINE 4 |
|
| arTal_v1_Chr4_-_2992618_2992618 Show fit | 4.52 |
AT4G05631.1
|
hypothetical protein |
|
| arTal_v1_Chr5_-_8444101_8444101 Show fit | 4.49 |
AT5G24660.1
|
response to low sulfur 2 |
|
| arTal_v1_Chr2_+_18346306_18346306 Show fit | 4.39 |
AT2G44460.1
|
beta glucosidase 28 |
|
| arTal_v1_Chr2_+_18347765_18347765 Show fit | 4.23 |
AT2G44460.2
|
beta glucosidase 28 |
|
| arTal_v1_Chr1_+_3019639_3019639 Show fit | 4.18 |
AT1G09350.1
|
galactinol synthase 3 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT5G16820
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 15.3 | GO:0016145 | S-glycoside catabolic process(GO:0016145) glycosinolate catabolic process(GO:0019759) glucosinolate catabolic process(GO:0019762) |
| 0.5 | 14.5 | GO:0042026 | protein refolding(GO:0042026) |
| 0.3 | 14.3 | GO:0010286 | heat acclimation(GO:0010286) |
| 0.2 | 13.3 | GO:0009644 | response to high light intensity(GO:0009644) |
| 0.3 | 13.2 | GO:0045036 | protein targeting to chloroplast(GO:0045036) establishment of protein localization to chloroplast(GO:0072596) |
| 0.0 | 13.2 | GO:0016567 | protein ubiquitination(GO:0016567) |
| 0.2 | 13.1 | GO:0015995 | chlorophyll biosynthetic process(GO:0015995) |
| 0.0 | 12.1 | GO:0043043 | translation(GO:0006412) peptide biosynthetic process(GO:0043043) |
| 0.4 | 12.0 | GO:0006012 | galactose metabolic process(GO:0006012) |
| 0.2 | 11.4 | GO:0007018 | microtubule-based movement(GO:0007018) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 137.8 | GO:0009536 | plastid(GO:0009536) |
| 0.0 | 115.4 | GO:0005829 | cytosol(GO:0005829) |
| 0.1 | 77.4 | GO:0009532 | plastid stroma(GO:0009532) |
| 0.1 | 24.3 | GO:0005730 | nucleolus(GO:0005730) |
| 0.1 | 20.9 | GO:0009941 | chloroplast envelope(GO:0009941) |
| 0.1 | 18.5 | GO:0042651 | thylakoid membrane(GO:0042651) |
| 0.1 | 12.2 | GO:0033643 | host(GO:0018995) host cell part(GO:0033643) host intracellular part(GO:0033646) host intracellular organelle(GO:0033647) host intracellular membrane-bounded organelle(GO:0033648) host cell nucleus(GO:0042025) intracellular region of host(GO:0043656) host cell(GO:0043657) other organism(GO:0044215) other organism cell(GO:0044216) other organism part(GO:0044217) |
| 0.2 | 10.2 | GO:0009543 | chloroplast thylakoid lumen(GO:0009543) plastid thylakoid lumen(GO:0031978) |
| 0.2 | 10.1 | GO:0010287 | plastoglobule(GO:0010287) |
| 0.2 | 10.0 | GO:0031969 | chloroplast membrane(GO:0031969) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 35.5 | GO:0001071 | nucleic acid binding transcription factor activity(GO:0001071) transcription factor activity, sequence-specific DNA binding(GO:0003700) |
| 0.1 | 24.4 | GO:0043531 | ADP binding(GO:0043531) |
| 0.3 | 21.6 | GO:0003724 | RNA helicase activity(GO:0003724) |
| 0.2 | 17.3 | GO:0051082 | unfolded protein binding(GO:0051082) |
| 0.4 | 15.8 | GO:0031072 | heat shock protein binding(GO:0031072) |
| 0.0 | 15.6 | GO:0044822 | mRNA binding(GO:0003729) poly(A) RNA binding(GO:0044822) |
| 0.1 | 14.7 | GO:0000978 | RNA polymerase II core promoter proximal region sequence-specific DNA binding(GO:0000978) |
| 1.4 | 12.6 | GO:0047216 | inositol 3-alpha-galactosyltransferase activity(GO:0047216) |
| 0.2 | 12.4 | GO:0003755 | peptidyl-prolyl cis-trans isomerase activity(GO:0003755) |
| 0.0 | 11.7 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.6 | 5.0 | NABA CORE MATRISOME | Ensemble of genes encoding core extracellular matrix including ECM glycoproteins, collagens and proteoglycans |
| 0.5 | 2.6 | PID P53 REGULATION PATHWAY | p53 pathway |
| 0.6 | 2.5 | PID ATF2 PATHWAY | ATF-2 transcription factor network |
| 0.8 | 2.3 | PID HNF3B PATHWAY | FOXA2 and FOXA3 transcription factor networks |
| 0.5 | 2.1 | PID AP1 PATHWAY | AP-1 transcription factor network |
| 0.2 | 2.1 | PID E2F PATHWAY | E2F transcription factor network |
| 0.6 | 1.7 | PID TAP63 PATHWAY | Validated transcriptional targets of TAp63 isoforms |
| 0.4 | 1.5 | PID S1P S1P1 PATHWAY | S1P1 pathway |
| 0.4 | 1.4 | PID HIF2PATHWAY | HIF-2-alpha transcription factor network |
| 0.2 | 1.4 | PID NOTCH PATHWAY | Notch signaling pathway |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 2.5 | REACTOME TRANSLATION | Genes involved in Translation |
| 0.8 | 2.3 | REACTOME REGULATION OF INSULIN SECRETION | Genes involved in Regulation of Insulin Secretion |
| 0.5 | 2.3 | REACTOME SLC MEDIATED TRANSMEMBRANE TRANSPORT | Genes involved in SLC-mediated transmembrane transport |
| 0.4 | 2.2 | REACTOME HOST INTERACTIONS OF HIV FACTORS | Genes involved in Host Interactions of HIV factors |
| 0.3 | 2.0 | REACTOME GLYCEROPHOSPHOLIPID BIOSYNTHESIS | Genes involved in Glycerophospholipid biosynthesis |
| 0.2 | 1.5 | REACTOME GLUCOSE METABOLISM | Genes involved in Glucose metabolism |
| 0.1 | 1.5 | REACTOME TRANSMEMBRANE TRANSPORT OF SMALL MOLECULES | Genes involved in Transmembrane transport of small molecules |
| 0.5 | 1.4 | REACTOME ABACAVIR TRANSPORT AND METABOLISM | Genes involved in Abacavir transport and metabolism |
| 0.1 | 1.4 | REACTOME FACTORS INVOLVED IN MEGAKARYOCYTE DEVELOPMENT AND PLATELET PRODUCTION | Genes involved in Factors involved in megakaryocyte development and platelet production |
| 0.4 | 1.3 | REACTOME TRNA AMINOACYLATION | Genes involved in tRNA Aminoacylation |