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GSE43616: Time-course of wild-type Arabidopsis leaf
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Results for AT4G38000
Z-value: 0.70
Transcription factors associated with AT4G38000
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT4G38000
|
AT4G38000 | DNA binding with one finger 4.7 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| DOF4.7 | arTal_v1_Chr4_+_17858351_17858351 | -0.66 | 1.3e-04 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr5_+_9072708_9072727 Show fit | 2.77 |
AT5G25980.2
AT5G25980.1 AT5G25980.3 |
glucoside glucohydrolase 2 |
|
| arTal_v1_Chr5_-_19648362_19648362 Show fit | 2.71 |
AT5G48490.1
|
Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein |
|
| arTal_v1_Chr1_-_29635931_29635931 Show fit | 2.16 |
AT1G78820.1
|
D-mannose binding lectin protein with Apple-like carbohydrate-binding domain-containing protein |
|
| arTal_v1_Chr2_-_16950705_16950705 Show fit | 1.87 |
AT2G40610.1
|
expansin A8 |
|
| arTal_v1_Chr1_-_10475969_10475969 Show fit | 1.80 |
AT1G29920.1
|
chlorophyll A/B-binding protein 2 |
|
| arTal_v1_Chr4_-_17777445_17777445 Show fit | 1.79 |
AT4G37800.1
|
xyloglucan endotransglucosylase/hydrolase 7 |
|
| arTal_v1_Chr2_+_14577083_14577083 Show fit | 1.78 |
AT2G34620.1
|
Mitochondrial transcription termination factor family protein |
|
| arTal_v1_Chr1_+_10371675_10371675 Show fit | 1.74 |
AT1G29660.1
|
GDSL-like Lipase/Acylhydrolase superfamily protein |
|
| arTal_v1_Chr3_-_8589754_8589754 Show fit | 1.74 |
AT3G23810.1
|
S-adenosyl-l-homocysteine (SAH) hydrolase 2 |
|
| arTal_v1_Chr1_-_24606722_24606722 Show fit | 1.71 |
AT1G66100.1
|
Plant thionin |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT4G38000
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 7.2 | GO:0006949 | syncytium formation(GO:0006949) |
| 0.1 | 6.7 | GO:0010411 | xyloglucan metabolic process(GO:0010411) |
| 0.3 | 6.1 | GO:0006636 | unsaturated fatty acid biosynthetic process(GO:0006636) |
| 0.0 | 4.9 | GO:0009664 | plant-type cell wall organization(GO:0009664) |
| 0.1 | 3.5 | GO:0019759 | S-glycoside catabolic process(GO:0016145) glycosinolate catabolic process(GO:0019759) glucosinolate catabolic process(GO:0019762) |
| 0.4 | 3.2 | GO:0010065 | primary meristem tissue development(GO:0010065) |
| 0.1 | 3.2 | GO:0016131 | phytosteroid metabolic process(GO:0016128) brassinosteroid metabolic process(GO:0016131) |
| 0.1 | 3.2 | GO:0015995 | chlorophyll biosynthetic process(GO:0015995) |
| 0.1 | 3.1 | GO:0010143 | cutin biosynthetic process(GO:0010143) |
| 0.1 | 2.8 | GO:2000033 | regulation of seed dormancy process(GO:2000033) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 37.0 | GO:0005576 | extracellular region(GO:0005576) |
| 0.1 | 13.8 | GO:0055035 | plastid thylakoid membrane(GO:0055035) |
| 0.0 | 12.6 | GO:0009570 | chloroplast stroma(GO:0009570) |
| 0.0 | 11.1 | GO:0031225 | anchored component of membrane(GO:0031225) |
| 0.1 | 10.2 | GO:0099503 | secretory vesicle(GO:0099503) |
| 0.0 | 5.6 | GO:0005618 | cell wall(GO:0005618) external encapsulating structure(GO:0030312) |
| 0.0 | 4.2 | GO:0009505 | plant-type cell wall(GO:0009505) |
| 0.2 | 3.2 | GO:0009531 | secondary cell wall(GO:0009531) |
| 0.0 | 2.7 | GO:0005615 | extracellular space(GO:0005615) |
| 0.0 | 2.7 | GO:0048046 | apoplast(GO:0048046) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 6.5 | GO:0016762 | xyloglucan:xyloglucosyl transferase activity(GO:0016762) |
| 0.2 | 5.7 | GO:0004565 | beta-galactosidase activity(GO:0004565) |
| 0.4 | 5.4 | GO:0042389 | omega-3 fatty acid desaturase activity(GO:0042389) |
| 0.0 | 5.2 | GO:0008134 | transcription factor binding(GO:0008134) |
| 0.1 | 4.5 | GO:0004650 | polygalacturonase activity(GO:0004650) |
| 0.2 | 4.4 | 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) |
| 0.0 | 4.3 | GO:0004252 | serine-type endopeptidase activity(GO:0004252) |
| 0.0 | 4.0 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 0.1 | 3.6 | GO:0008810 | cellulase activity(GO:0008810) |
| 0.4 | 3.1 | GO:0019137 | thioglucosidase activity(GO:0019137) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 2.2 | PID ATR PATHWAY | ATR signaling pathway |
| 0.2 | 0.7 | PID P53 REGULATION PATHWAY | p53 pathway |
| 0.1 | 0.7 | NABA MATRISOME ASSOCIATED | Ensemble of genes encoding ECM-associated proteins including ECM-affilaited proteins, ECM regulators and secreted factors |
| 0.1 | 0.6 | PID MTOR 4PATHWAY | mTOR signaling pathway |
| 0.1 | 0.6 | PID FANCONI PATHWAY | Fanconi anemia pathway |
| 0.2 | 0.5 | SA CASPASE CASCADE | Apoptosis is mediated by caspases, cysteine proteases arranged in a proteolytic cascade. |
| 0.1 | 0.4 | PID HES HEY PATHWAY | Notch-mediated HES/HEY network |
| 0.1 | 0.4 | ST FAS SIGNALING PATHWAY | Fas Signaling Pathway |
| 0.1 | 0.3 | PID HIF1A PATHWAY | Hypoxic and oxygen homeostasis regulation of HIF-1-alpha |
| 0.0 | 0.1 | PID ATM PATHWAY | ATM pathway |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 1.7 | REACTOME UNWINDING OF DNA | Genes involved in Unwinding of DNA |
| 0.1 | 1.2 | REACTOME ACTIVATION OF ATR IN RESPONSE TO REPLICATION STRESS | Genes involved in Activation of ATR in response to replication stress |
| 0.0 | 0.9 | REACTOME ACTIVATION OF THE MRNA UPON BINDING OF THE CAP BINDING COMPLEX AND EIFS AND SUBSEQUENT BINDING TO 43S | Genes involved in Activation of the mRNA upon binding of the cap-binding complex and eIFs, and subsequent binding to 43S |
| 0.2 | 0.8 | REACTOME LOSS OF NLP FROM MITOTIC CENTROSOMES | Genes involved in Loss of Nlp from mitotic centrosomes |
| 0.2 | 0.7 | REACTOME FANCONI ANEMIA PATHWAY | Genes involved in Fanconi Anemia pathway |
| 0.2 | 0.6 | REACTOME INTEGRATION OF ENERGY METABOLISM | Genes involved in Integration of energy metabolism |
| 0.2 | 0.6 | REACTOME DEADENYLATION OF MRNA | Genes involved in Deadenylation of mRNA |
| 0.1 | 0.5 | REACTOME GOLGI ASSOCIATED VESICLE BIOGENESIS | Genes involved in Golgi Associated Vesicle Biogenesis |
| 0.1 | 0.4 | REACTOME G1 S SPECIFIC TRANSCRIPTION | Genes involved in G1/S-Specific Transcription |
| 0.1 | 0.4 | REACTOME ANTIVIRAL MECHANISM BY IFN STIMULATED GENES | Genes involved in Antiviral mechanism by IFN-stimulated genes |