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GSE43616: Time-course of wild-type Arabidopsis leaf
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Results for AT3G60580
Z-value: 3.04
Transcription factors associated with AT3G60580
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT3G60580
|
AT3G60580 | C2H2-like zinc finger protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| AT3G60580 | arTal_v1_Chr3_+_22393823_22393823 | -0.42 | 2.4e-02 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr3_+_10255906_10255941 Show fit | 8.86 |
AT3G27690.2
AT3G27690.1 |
photosystem II light harvesting complex protein 2.3 |
|
| arTal_v1_Chr2_-_1800472_1800472 Show fit | 7.90 |
AT2G05070.1
|
photosystem II light harvesting complex protein 2.2 |
|
| arTal_v1_Chr5_+_4757856_4757972 Show fit | 7.44 |
AT5G14740.3
AT5G14740.6 AT5G14740.1 AT5G14740.7 AT5G14740.8 AT5G14740.2 AT5G14740.4 AT5G14740.5 |
carbonic anhydrase 2 |
|
| arTal_v1_Chr5_+_22038165_22038165 Show fit | 6.96 |
AT5G54270.1
|
light-harvesting chlorophyll B-binding protein 3 |
|
| arTal_v1_Chr2_-_11717432_11717437 Show fit | 6.91 |
AT2G27385.3
AT2G27385.2 AT2G27385.1 |
Pollen Ole e 1 allergen and extensin family protein |
|
| arTal_v1_Chr2_+_16476198_16476216 Show fit | 6.76 |
AT2G39470.1
AT2G39470.2 AT2G39470.3 |
PsbP-like protein 2 |
|
| arTal_v1_Chr1_+_26687202_26687202 Show fit | 6.35 |
AT1G70760.1
|
inorganic carbon transport protein-like protein |
|
| arTal_v1_Chr1_+_3008910_3008910 Show fit | 6.32 |
AT1G09310.1
|
plant/protein (Protein of unknown function, DUF538) |
|
| arTal_v1_Chr5_+_26298728_26298728 Show fit | 6.25 |
AT5G65730.1
|
xyloglucan endotransglucosylase/hydrolase 6 |
|
| arTal_v1_Chr5_+_4758921_4758921 Show fit | 6.13 |
AT5G14740.9
|
carbonic anhydrase 2 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT3G60580
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 36.6 | GO:0006412 | translation(GO:0006412) |
| 0.5 | 35.4 | GO:0007018 | microtubule-based movement(GO:0007018) |
| 0.3 | 28.7 | GO:0015979 | photosynthesis(GO:0015979) |
| 1.1 | 27.5 | GO:0010207 | photosystem II assembly(GO:0010207) |
| 0.3 | 24.7 | GO:0045490 | pectin catabolic process(GO:0045490) |
| 1.0 | 23.9 | GO:0006112 | glycogen metabolic process(GO:0005977) energy reserve metabolic process(GO:0006112) |
| 4.0 | 23.7 | GO:0009769 | photosynthesis, light harvesting in photosystem II(GO:0009769) |
| 2.3 | 23.4 | GO:0019676 | ammonia assimilation cycle(GO:0019676) |
| 3.0 | 17.7 | GO:0010258 | NADH dehydrogenase complex (plastoquinone) assembly(GO:0010258) |
| 0.3 | 17.0 | GO:0009834 | plant-type secondary cell wall biogenesis(GO:0009834) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.5 | 173.5 | GO:0009579 | thylakoid(GO:0009579) |
| 0.3 | 127.7 | GO:0009532 | plastid stroma(GO:0009532) |
| 0.0 | 109.4 | GO:0005576 | extracellular region(GO:0005576) |
| 0.0 | 103.9 | GO:0009507 | chloroplast(GO:0009507) |
| 0.4 | 83.6 | GO:0009505 | plant-type cell wall(GO:0009505) |
| 0.2 | 48.3 | GO:0044434 | chloroplast part(GO:0044434) |
| 0.3 | 44.5 | GO:0015934 | large ribosomal subunit(GO:0015934) |
| 0.3 | 38.2 | GO:0046658 | anchored component of plasma membrane(GO:0046658) |
| 0.8 | 32.6 | GO:0010319 | stromule(GO:0010319) |
| 0.2 | 29.2 | GO:0048046 | apoplast(GO:0048046) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 76.1 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 0.4 | 29.5 | GO:0008017 | microtubule binding(GO:0008017) |
| 0.5 | 27.9 | GO:0003755 | peptidyl-prolyl cis-trans isomerase activity(GO:0003755) |
| 0.4 | 27.1 | GO:0003777 | microtubule motor activity(GO:0003777) |
| 0.2 | 23.9 | GO:0004252 | serine-type endopeptidase activity(GO:0004252) |
| 0.9 | 22.7 | GO:0016168 | chlorophyll binding(GO:0016168) |
| 0.8 | 20.7 | GO:0030570 | carbon-oxygen lyase activity, acting on polysaccharides(GO:0016837) pectate lyase activity(GO:0030570) |
| 0.0 | 17.0 | GO:0004672 | protein kinase activity(GO:0004672) |
| 0.5 | 15.5 | GO:0047262 | polygalacturonate 4-alpha-galacturonosyltransferase activity(GO:0047262) |
| 0.4 | 15.5 | GO:0050135 | NAD(P)+ nucleosidase activity(GO:0050135) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.2 | 7.4 | NABA MATRISOME ASSOCIATED | Ensemble of genes encoding ECM-associated proteins including ECM-affilaited proteins, ECM regulators and secreted factors |
| 0.5 | 4.3 | PID FANCONI PATHWAY | Fanconi anemia pathway |
| 0.5 | 3.1 | PID BARD1 PATHWAY | BARD1 signaling events |
| 0.6 | 2.2 | PID BCR 5PATHWAY | BCR signaling pathway |
| 0.3 | 2.2 | PID MYC ACTIV PATHWAY | Validated targets of C-MYC transcriptional activation |
| 0.2 | 1.7 | PID HIF1 TFPATHWAY | HIF-1-alpha transcription factor network |
| 0.4 | 1.1 | PID AVB3 OPN PATHWAY | Osteopontin-mediated events |
| 0.3 | 1.0 | PID VEGF VEGFR PATHWAY | VEGF and VEGFR signaling network |
| 0.3 | 0.8 | PID ATM PATHWAY | ATM pathway |
| 0.3 | 0.8 | PID HIV NEF PATHWAY | HIV-1 Nef: Negative effector of Fas and TNF-alpha |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.7 | 16.8 | REACTOME PEPTIDE CHAIN ELONGATION | Genes involved in Peptide chain elongation |
| 2.3 | 13.6 | REACTOME REVERSIBLE HYDRATION OF CARBON DIOXIDE | Genes involved in Reversible Hydration of Carbon Dioxide |
| 0.7 | 5.0 | REACTOME UNWINDING OF DNA | Genes involved in Unwinding of DNA |
| 0.9 | 4.7 | REACTOME GOLGI ASSOCIATED VESICLE BIOGENESIS | Genes involved in Golgi Associated Vesicle Biogenesis |
| 0.9 | 4.3 | REACTOME PHASE II CONJUGATION | Genes involved in Phase II conjugation |
| 0.8 | 3.9 | REACTOME DOPAMINE NEUROTRANSMITTER RELEASE CYCLE | Genes involved in Dopamine Neurotransmitter Release Cycle |
| 0.4 | 3.2 | REACTOME POL SWITCHING | Genes involved in Polymerase switching |
| 0.6 | 2.8 | REACTOME PROLACTIN RECEPTOR SIGNALING | Genes involved in Prolactin receptor signaling |
| 0.9 | 2.7 | REACTOME GLYCOSPHINGOLIPID METABOLISM | Genes involved in Glycosphingolipid metabolism |
| 0.7 | 2.2 | REACTOME PHOSPHORYLATION OF CD3 AND TCR ZETA CHAINS | Genes involved in Phosphorylation of CD3 and TCR zeta chains |