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GSE43616: Time-course of wild-type Arabidopsis leaf
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Results for AT1G02230
Z-value: 0.67
Transcription factors associated with AT1G02230
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT1G02230
|
AT1G02230 | NAC domain containing protein 4 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| NAC004 | arTal_v1_Chr1_-_436922_436922 | -0.32 | 1.0e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr3_+_17228642_17228642 Show fit | 1.31 |
AT3G46780.1
|
plastid transcriptionally active 16 |
|
| arTal_v1_Chr2_-_7954680_7954785 Show fit | 1.28 |
AT2G18300.1
AT2G18300.3 AT2G18300.2 |
basic helix-loop-helix (bHLH) DNA-binding superfamily protein |
|
| arTal_v1_Chr5_+_4757856_4757972 Show fit | 1.27 |
AT5G14740.3
AT5G14740.6 AT5G14740.1 AT5G14740.7 AT5G14740.8 AT5G14740.2 AT5G14740.4 AT5G14740.5 |
carbonic anhydrase 2 |
|
| arTal_v1_Chr1_+_11532199_11532199 Show fit | 1.26 |
AT1G32060.1
|
phosphoribulokinase |
|
| arTal_v1_Chr3_-_197974_197974 Show fit | 1.20 |
AT3G01500.1
|
carbonic anhydrase 1 |
|
| arTal_v1_Chr3_-_198160_198160 Show fit | 1.17 |
AT3G01500.2
|
carbonic anhydrase 1 |
|
| arTal_v1_Chr1_-_7531108_7531108 Show fit | 1.16 |
AT1G21500.1
|
hypothetical protein |
|
| arTal_v1_Chr3_-_198664_198664 Show fit | 1.16 |
AT3G01500.3
|
carbonic anhydrase 1 |
|
| arTal_v1_Chr1_+_10477885_10477885 Show fit | 1.12 |
AT1G29930.1
|
chlorophyll A/B binding protein 1 |
|
| arTal_v1_Chr1_+_26141726_26141836 Show fit | 1.11 |
AT1G69530.2
AT1G69530.1 AT1G69530.3 AT1G69530.5 AT1G69530.4 |
expansin A1 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT1G02230
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 6.8 | GO:0015976 | carbon utilization(GO:0015976) |
| 0.1 | 4.3 | GO:0015995 | chlorophyll biosynthetic process(GO:0015995) |
| 0.3 | 3.9 | GO:0015977 | carbon fixation(GO:0015977) reductive pentose-phosphate cycle(GO:0019253) |
| 0.1 | 3.3 | GO:0009828 | plant-type cell wall loosening(GO:0009828) |
| 0.2 | 2.4 | GO:1990066 | nonphotochemical quenching(GO:0010196) energy quenching(GO:1990066) |
| 0.1 | 2.4 | GO:0009638 | phototropism(GO:0009638) |
| 0.1 | 2.1 | GO:0009768 | photosynthesis, light harvesting in photosystem I(GO:0009768) |
| 0.3 | 2.0 | GO:0010258 | NADH dehydrogenase complex (plastoquinone) assembly(GO:0010258) |
| 0.2 | 2.0 | GO:0010206 | photosystem II repair(GO:0010206) |
| 0.2 | 1.9 | GO:0010188 | response to microbial phytotoxin(GO:0010188) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 15.3 | GO:0009534 | chloroplast thylakoid(GO:0009534) |
| 0.3 | 13.4 | GO:0010319 | stromule(GO:0010319) |
| 0.0 | 10.8 | GO:0009570 | chloroplast stroma(GO:0009570) |
| 0.3 | 5.3 | GO:0098807 | chloroplast thylakoid membrane protein complex(GO:0098807) |
| 0.0 | 3.9 | GO:0046658 | anchored component of plasma membrane(GO:0046658) |
| 0.1 | 3.8 | GO:0031977 | thylakoid lumen(GO:0031977) |
| 0.0 | 3.0 | GO:0009505 | plant-type cell wall(GO:0009505) |
| 0.1 | 2.8 | GO:0009654 | photosystem II oxygen evolving complex(GO:0009654) |
| 0.0 | 2.6 | GO:0005802 | trans-Golgi network(GO:0005802) |
| 0.1 | 2.1 | GO:0009508 | plastid chromosome(GO:0009508) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 7.4 | GO:0004089 | carbonate dehydratase activity(GO:0004089) |
| 0.0 | 3.7 | GO:0004252 | serine-type endopeptidase activity(GO:0004252) |
| 0.0 | 2.3 | GO:0043531 | ADP binding(GO:0043531) |
| 0.7 | 2.2 | GO:0051738 | xanthophyll binding(GO:0051738) |
| 0.1 | 2.1 | GO:0016168 | chlorophyll binding(GO:0016168) |
| 0.0 | 2.1 | GO:0043621 | protein self-association(GO:0043621) |
| 0.3 | 2.0 | GO:0004121 | cystathionine beta-lyase activity(GO:0004121) |
| 0.4 | 1.8 | GO:0016851 | magnesium chelatase activity(GO:0016851) ligase activity, forming nitrogen-metal bonds(GO:0051002) ligase activity, forming nitrogen-metal bonds, forming coordination complexes(GO:0051003) |
| 0.3 | 1.8 | GO:0016984 | ribulose-bisphosphate carboxylase activity(GO:0016984) |
| 0.1 | 1.8 | GO:0080031 | methyl salicylate esterase activity(GO:0080031) methyl jasmonate esterase activity(GO:0080032) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.6 | 4.6 | PID CMYB PATHWAY | C-MYB transcription factor network |
| 0.2 | 0.6 | PID HIF2PATHWAY | HIF-2-alpha transcription factor network |
| 0.1 | 0.4 | PID AP1 PATHWAY | AP-1 transcription factor network |
| 0.0 | 0.4 | PID E2F PATHWAY | E2F transcription factor network |
| 0.1 | 0.3 | PID DELTA NP63 PATHWAY | Validated transcriptional targets of deltaNp63 isoforms |
| 0.1 | 0.3 | PID ECADHERIN NASCENT AJ PATHWAY | E-cadherin signaling in the nascent adherens junction |
| 0.0 | 0.3 | PID ATR PATHWAY | ATR signaling pathway |
| 0.0 | 0.2 | PID HIF1A PATHWAY | Hypoxic and oxygen homeostasis regulation of HIF-1-alpha |
| 0.0 | 0.1 | PID HNF3B PATHWAY | FOXA2 and FOXA3 transcription factor networks |
| 0.0 | 0.1 | PID ERA GENOMIC PATHWAY | Validated nuclear estrogen receptor alpha network |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.2 | 6.9 | REACTOME REVERSIBLE HYDRATION OF CARBON DIOXIDE | Genes involved in Reversible Hydration of Carbon Dioxide |
| 0.2 | 1.5 | REACTOME GLUCOSE METABOLISM | Genes involved in Glucose metabolism |
| 0.0 | 1.0 | REACTOME INFLUENZA VIRAL RNA TRANSCRIPTION AND REPLICATION | Genes involved in Influenza Viral RNA Transcription and Replication |
| 0.1 | 0.4 | REACTOME G0 AND EARLY G1 | Genes involved in G0 and Early G1 |
| 0.1 | 0.3 | REACTOME GASTRIN CREB SIGNALLING PATHWAY VIA PKC AND MAPK | Genes involved in Gastrin-CREB signalling pathway via PKC and MAPK |
| 0.1 | 0.3 | REACTOME G2 M DNA DAMAGE CHECKPOINT | Genes involved in G2/M DNA damage checkpoint |
| 0.0 | 0.3 | REACTOME POL SWITCHING | Genes involved in Polymerase switching |
| 0.1 | 0.2 | REACTOME OXYGEN DEPENDENT PROLINE HYDROXYLATION OF HYPOXIA INDUCIBLE FACTOR ALPHA | Genes involved in Oxygen-dependent Proline Hydroxylation of Hypoxia-inducible Factor Alpha |
| 0.0 | 0.2 | REACTOME E2F ENABLED INHIBITION OF PRE REPLICATION COMPLEX FORMATION | Genes involved in E2F-enabled inhibition of pre-replication complex formation |
| 0.0 | 0.1 | REACTOME SIGNALING BY NOTCH1 | Genes involved in Signaling by NOTCH1 |