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GSE43616: Time-course of wild-type Arabidopsis leaf
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Results for AT4G01540
Z-value: 0.98
Transcription factors associated with AT4G01540
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT4G01540
|
AT4G01540 | NAC with transmembrane motif1 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| NTM1 | arTal_v1_Chr4_-_672789_672789 | -0.46 | 1.4e-02 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr5_-_15382071_15382071 Show fit | 2.10 |
AT5G38420.1
|
Ribulose bisphosphate carboxylase (small chain) family protein |
|
| arTal_v1_Chr5_+_4757856_4757972 Show fit | 2.08 |
AT5G14740.3
AT5G14740.6 AT5G14740.1 AT5G14740.7 AT5G14740.8 AT5G14740.2 AT5G14740.4 AT5G14740.5 |
carbonic anhydrase 2 |
|
| arTal_v1_Chr3_+_17228642_17228642 Show fit | 2.07 |
AT3G46780.1
|
plastid transcriptionally active 16 |
|
| arTal_v1_Chr5_+_22038165_22038165 Show fit | 2.07 |
AT5G54270.1
|
light-harvesting chlorophyll B-binding protein 3 |
|
| arTal_v1_Chr2_+_16476198_16476216 Show fit | 1.98 |
AT2G39470.1
AT2G39470.2 AT2G39470.3 |
PsbP-like protein 2 |
|
| arTal_v1_Chr3_+_23266227_23266227 Show fit | 1.93 |
AT3G62950.1
|
Thioredoxin superfamily protein |
|
| arTal_v1_Chr3_-_197974_197974 Show fit | 1.93 |
AT3G01500.1
|
carbonic anhydrase 1 |
|
| arTal_v1_Chr5_-_17909507_17909507 Show fit | 1.91 |
AT5G44430.1
|
plant defensin 1.2C |
|
| arTal_v1_Chr2_-_7954680_7954785 Show fit | 1.91 |
AT2G18300.1
AT2G18300.3 AT2G18300.2 |
basic helix-loop-helix (bHLH) DNA-binding superfamily protein |
|
| arTal_v1_Chr3_-_198160_198160 Show fit | 1.89 |
AT3G01500.2
|
carbonic anhydrase 1 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT4G01540
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.7 | 11.0 | GO:0015976 | carbon utilization(GO:0015976) |
| 0.1 | 7.9 | GO:0019684 | photosynthesis, light reaction(GO:0019684) |
| 0.2 | 7.3 | GO:0045036 | protein targeting to chloroplast(GO:0045036) establishment of protein localization to chloroplast(GO:0072596) |
| 0.1 | 7.2 | GO:0015979 | photosynthesis(GO:0015979) |
| 0.1 | 6.8 | GO:0015995 | chlorophyll biosynthetic process(GO:0015995) |
| 0.1 | 6.3 | GO:0007018 | microtubule-based movement(GO:0007018) |
| 0.3 | 5.7 | GO:0009773 | photosynthetic electron transport in photosystem I(GO:0009773) |
| 0.0 | 5.0 | GO:0006633 | fatty acid biosynthetic process(GO:0006633) |
| 0.7 | 4.3 | GO:0010258 | NADH dehydrogenase complex (plastoquinone) assembly(GO:0010258) |
| 0.6 | 4.0 | GO:0009772 | photosynthetic electron transport in photosystem II(GO:0009772) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 33.3 | GO:0009534 | chloroplast thylakoid(GO:0009534) |
| 0.1 | 28.1 | GO:0009570 | chloroplast stroma(GO:0009570) |
| 0.4 | 17.9 | GO:0010319 | stromule(GO:0010319) |
| 0.1 | 10.4 | GO:0099503 | secretory vesicle(GO:0099503) |
| 0.2 | 9.2 | GO:0031977 | thylakoid lumen(GO:0031977) |
| 0.3 | 8.2 | GO:0009654 | photosystem II oxygen evolving complex(GO:0009654) |
| 0.1 | 7.5 | GO:0009579 | thylakoid(GO:0009579) |
| 0.6 | 5.7 | GO:0009517 | thylakoid light-harvesting complex(GO:0009503) PSII associated light-harvesting complex II(GO:0009517) light-harvesting complex(GO:0030076) |
| 0.3 | 5.5 | GO:0010598 | NAD(P)H dehydrogenase complex (plastoquinone)(GO:0010598) |
| 0.6 | 4.9 | GO:0009538 | photosystem I reaction center(GO:0009538) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 9.8 | GO:0004089 | carbonate dehydratase activity(GO:0004089) |
| 0.1 | 8.3 | GO:0004252 | serine-type endopeptidase activity(GO:0004252) |
| 0.1 | 7.2 | GO:0043621 | protein self-association(GO:0043621) |
| 0.1 | 6.9 | GO:0003777 | microtubule motor activity(GO:0003777) |
| 0.0 | 6.7 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 0.2 | 5.5 | GO:0102336 | 3-oxo-arachidoyl-CoA synthase activity(GO:0102336) 3-oxo-cerotoyl-CoA synthase activity(GO:0102337) 3-oxo-lignoceronyl-CoA synthase activity(GO:0102338) |
| 0.9 | 5.2 | GO:0016984 | ribulose-bisphosphate carboxylase activity(GO:0016984) |
| 0.0 | 4.8 | GO:0043531 | ADP binding(GO:0043531) |
| 0.1 | 4.1 | GO:0008266 | poly(U) RNA binding(GO:0008266) |
| 0.2 | 3.7 | GO:0016168 | chlorophyll binding(GO:0016168) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.9 | 7.5 | PID CMYB PATHWAY | C-MYB transcription factor network |
| 0.5 | 1.5 | PID IL8 CXCR1 PATHWAY | IL8- and CXCR1-mediated signaling events |
| 0.2 | 0.8 | PID P53 REGULATION PATHWAY | p53 pathway |
| 0.1 | 0.5 | PID HIF1 TFPATHWAY | HIF-1-alpha transcription factor network |
| 0.1 | 0.4 | PID MYC REPRESS PATHWAY | Validated targets of C-MYC transcriptional repression |
| 0.1 | 0.4 | PID AP1 PATHWAY | AP-1 transcription factor network |
| 0.0 | 0.3 | NABA CORE MATRISOME | Ensemble of genes encoding core extracellular matrix including ECM glycoproteins, collagens and proteoglycans |
| 0.1 | 0.2 | PID ERA GENOMIC PATHWAY | Validated nuclear estrogen receptor alpha network |
| 0.1 | 0.2 | PID ATM PATHWAY | ATM pathway |
| 0.1 | 0.2 | PID BARD1 PATHWAY | BARD1 signaling events |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.9 | 11.2 | REACTOME REVERSIBLE HYDRATION OF CARBON DIOXIDE | Genes involved in Reversible Hydration of Carbon Dioxide |
| 0.8 | 2.4 | REACTOME GABA SYNTHESIS RELEASE REUPTAKE AND DEGRADATION | Genes involved in GABA synthesis, release, reuptake and degradation |
| 0.1 | 1.7 | REACTOME SRP DEPENDENT COTRANSLATIONAL PROTEIN TARGETING TO MEMBRANE | Genes involved in SRP-dependent cotranslational protein targeting to membrane |
| 0.5 | 1.5 | REACTOME SPRY REGULATION OF FGF SIGNALING | Genes involved in Spry regulation of FGF signaling |
| 0.2 | 1.2 | REACTOME PHASE II CONJUGATION | Genes involved in Phase II conjugation |
| 0.2 | 0.5 | REACTOME G2 M DNA DAMAGE CHECKPOINT | Genes involved in G2/M DNA damage checkpoint |
| 0.1 | 0.4 | REACTOME GASTRIN CREB SIGNALLING PATHWAY VIA PKC AND MAPK | Genes involved in Gastrin-CREB signalling pathway via PKC and MAPK |
| 0.1 | 0.4 | REACTOME TRANSCRIPTIONAL ACTIVITY OF SMAD2 SMAD3 SMAD4 HETEROTRIMER | Genes involved in Transcriptional activity of SMAD2/SMAD3:SMAD4 heterotrimer |
| 0.1 | 0.4 | REACTOME SLC MEDIATED TRANSMEMBRANE TRANSPORT | Genes involved in SLC-mediated transmembrane transport |
| 0.1 | 0.3 | REACTOME TRNA AMINOACYLATION | Genes involved in tRNA Aminoacylation |