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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT3G46590
Z-value: 1.89
Transcription factors associated with AT3G46590
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT3G46590
|
AT3G46590 | TRF-like 1 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| TRFL1 | arTal_v1_Chr3_+_17152683_17152775 | 0.19 | 5.0e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr1_-_22363854_22363854 Show fit | 2.05 |
AT1G60750.1
|
NAD(P)-linked oxidoreductase superfamily protein |
|
| arTal_v1_Chr5_-_18954692_18954692 Show fit | 1.85 |
AT5G46710.1
AT5G46710.2 AT5G46710.3 |
PLATZ transcription factor family protein |
|
| arTal_v1_Chr3_+_16297979_16297979 Show fit | 1.83 |
AT3G44750.2
|
histone deacetylase 3 |
|
| arTal_v1_Chr3_+_16297656_16297656 Show fit | 1.80 |
AT3G44750.1
|
histone deacetylase 3 |
|
| arTal_v1_Chr2_-_19315241_19315343 Show fit | 1.75 |
AT2G47000.7
AT2G47000.1 AT2G47000.2 AT2G47000.4 AT2G47000.3 |
ATP binding cassette subfamily B4 |
|
| arTal_v1_Chr1_-_6506542_6506542 Show fit | 1.71 |
AT1G18850.1
|
hypothetical protein |
|
| arTal_v1_Chr5_-_19974530_19974530 Show fit | 1.68 |
AT5G49270.1
|
COBRA-like extracellular glycosyl-phosphatidyl inositol-anchored protein family |
|
| arTal_v1_Chr1_+_5457084_5457084 Show fit | 1.67 |
AT1G15870.1
|
Mitochondrial glycoprotein family protein |
|
| arTal_v1_Chr5_+_22394550_22394550 Show fit | 1.67 |
AT5G55200.1
|
Co-chaperone GrpE family protein |
|
| arTal_v1_Chr4_-_2517217_2517217 Show fit | 1.66 |
AT4G04940.1
|
transducin family protein / WD-40 repeat family protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT3G46590
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 6.9 | GO:0042026 | protein refolding(GO:0042026) |
| 0.2 | 4.6 | GO:0030150 | protein import into mitochondrial matrix(GO:0030150) |
| 0.1 | 3.6 | GO:0009294 | genetic transfer(GO:0009292) DNA mediated transformation(GO:0009294) |
| 0.0 | 3.5 | GO:0006364 | rRNA processing(GO:0006364) |
| 0.7 | 3.3 | GO:0060919 | auxin influx(GO:0060919) |
| 0.1 | 2.9 | GO:0030490 | maturation of SSU-rRNA(GO:0030490) |
| 0.2 | 2.7 | GO:0000463 | maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)(GO:0000463) |
| 0.6 | 2.4 | GO:0000491 | small nucleolar ribonucleoprotein complex assembly(GO:0000491) |
| 0.2 | 2.3 | GO:0035336 | long-chain fatty-acyl-CoA metabolic process(GO:0035336) |
| 0.2 | 1.7 | GO:0070129 | regulation of mitochondrial translation(GO:0070129) positive regulation of mitochondrial translation(GO:0070131) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 6.7 | GO:0005730 | nucleolus(GO:0005730) |
| 0.1 | 6.2 | GO:0005759 | mitochondrial matrix(GO:0005759) |
| 0.5 | 3.3 | GO:0034388 | Pwp2p-containing subcomplex of 90S preribosome(GO:0034388) |
| 0.5 | 3.2 | GO:0001405 | presequence translocase-associated import motor(GO:0001405) |
| 0.1 | 2.2 | GO:0032040 | small-subunit processome(GO:0032040) |
| 0.0 | 2.2 | GO:0005747 | mitochondrial respiratory chain complex I(GO:0005747) NADH dehydrogenase complex(GO:0030964) respiratory chain complex I(GO:0045271) |
| 0.1 | 1.8 | GO:0005758 | mitochondrial intermembrane space(GO:0005758) |
| 0.0 | 1.5 | GO:0018995 | 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) |
| 0.1 | 1.4 | GO:0005732 | small nucleolar ribonucleoprotein complex(GO:0005732) |
| 0.0 | 1.4 | GO:0005743 | mitochondrial inner membrane(GO:0005743) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 5.0 | GO:0003724 | RNA helicase activity(GO:0003724) |
| 0.1 | 3.6 | GO:0004407 | histone deacetylase activity(GO:0004407) protein deacetylase activity(GO:0033558) |
| 0.4 | 3.3 | GO:0010328 | auxin influx transmembrane transporter activity(GO:0010328) |
| 0.3 | 3.2 | GO:0000774 | adenyl-nucleotide exchange factor activity(GO:0000774) |
| 0.0 | 2.6 | GO:0005507 | copper ion binding(GO:0005507) |
| 0.4 | 2.3 | GO:0050062 | long-chain-fatty-acyl-CoA reductase activity(GO:0050062) |
| 0.2 | 1.7 | GO:0097177 | translation activator activity(GO:0008494) mitochondrial ribosome binding(GO:0097177) |
| 0.0 | 1.7 | GO:0042393 | histone binding(GO:0042393) |
| 0.1 | 1.5 | GO:0016273 | arginine N-methyltransferase activity(GO:0016273) protein-arginine N-methyltransferase activity(GO:0016274) |
| 0.0 | 1.5 | GO:0031593 | polyubiquitin binding(GO:0031593) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 1.7 | PID VEGF VEGFR PATHWAY | VEGF and VEGFR signaling network |
| 0.2 | 1.5 | NABA ECM GLYCOPROTEINS | Genes encoding structural ECM glycoproteins |
| 0.2 | 0.6 | PID RAS PATHWAY | Regulation of Ras family activation |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 3.3 | REACTOME PPARA ACTIVATES GENE EXPRESSION | Genes involved in PPARA Activates Gene Expression |
| 0.4 | 1.7 | REACTOME VEGF LIGAND RECEPTOR INTERACTIONS | Genes involved in VEGF ligand-receptor interactions |
| 0.2 | 1.0 | REACTOME MITOCHONDRIAL PROTEIN IMPORT | Genes involved in Mitochondrial Protein Import |
| 0.1 | 0.6 | REACTOME UNWINDING OF DNA | Genes involved in Unwinding of DNA |