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GSE43616: Time-course of wild-type Arabidopsis leaf
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Results for AT5G62940
Z-value: 0.71
Transcription factors associated with AT5G62940
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT5G62940
|
AT5G62940 | Dof-type zinc finger DNA-binding family protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| HCA2 | arTal_v1_Chr5_-_25258704_25258704 | -0.41 | 3.1e-02 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr3_+_15983199_15983199 Show fit | 3.23 |
AT3G44300.1
|
nitrilase 2 |
|
| arTal_v1_Chr5_-_15825566_15825566 Show fit | 2.78 |
AT5G39520.1
|
hypothetical protein (DUF1997) |
|
| arTal_v1_Chr1_-_23238644_23238644 Show fit | 2.73 |
AT1G62760.1
|
Plant invertase/pectin methylesterase inhibitor superfamily protein |
|
| arTal_v1_Chr1_+_30150897_30151006 Show fit | 2.71 |
AT1G80160.3
AT1G80160.1 AT1G80160.2 |
Lactoylglutathione lyase / glyoxalase I family protein |
|
| arTal_v1_Chr3_+_22935510_22935510 Show fit | 2.63 |
AT3G61930.1
|
hypothetical protein |
|
| arTal_v1_Chr1_-_27548282_27548282 Show fit | 2.60 |
AT1G73260.1
|
kunitz trypsin inhibitor 1 |
|
| arTal_v1_Chr4_+_17855637_17855637 Show fit | 2.52 |
AT4G37990.1
|
cinnamyl alcohol dehydrogenase 8 |
|
| arTal_v1_Chr3_-_20769324_20769410 Show fit | 2.52 |
AT3G55970.2
AT3G55970.1 |
jasmonate-regulated gene 21 |
|
| arTal_v1_Chr3_-_6258426_6258426 Show fit | 2.50 |
AT3G18250.1
|
Putative membrane lipoprotein |
|
| arTal_v1_Chr4_+_15828228_15828228 Show fit | 2.37 |
AT4G32810.1
AT4G32810.2 |
carotenoid cleavage dioxygenase 8 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT5G62940
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 31.9 | GO:0071456 | cellular response to hypoxia(GO:0071456) |
| 0.3 | 15.2 | GO:2000022 | regulation of jasmonic acid mediated signaling pathway(GO:2000022) |
| 0.0 | 13.4 | GO:0016567 | protein ubiquitination(GO:0016567) |
| 0.1 | 9.9 | GO:0016579 | protein deubiquitination(GO:0016579) |
| 0.2 | 9.8 | GO:0072665 | protein targeting to vacuole(GO:0006623) protein localization to vacuole(GO:0072665) establishment of protein localization to vacuole(GO:0072666) |
| 0.0 | 9.7 | GO:0006511 | ubiquitin-dependent protein catabolic process(GO:0006511) |
| 0.2 | 8.9 | GO:0090487 | toxin catabolic process(GO:0009407) secondary metabolite catabolic process(GO:0090487) |
| 0.1 | 8.4 | GO:0009738 | abscisic acid-activated signaling pathway(GO:0009738) |
| 0.6 | 8.3 | GO:1900057 | positive regulation of leaf senescence(GO:1900057) |
| 0.1 | 8.3 | GO:0000209 | protein polyubiquitination(GO:0000209) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 29.8 | GO:0005886 | plasma membrane(GO:0005886) |
| 0.1 | 27.7 | GO:0005774 | vacuolar membrane(GO:0005774) |
| 0.1 | 6.5 | GO:0016607 | nuclear speck(GO:0016607) |
| 0.3 | 6.3 | GO:0031965 | nuclear membrane(GO:0031965) |
| 0.0 | 6.2 | GO:0000151 | ubiquitin ligase complex(GO:0000151) |
| 0.1 | 6.1 | GO:0019005 | SCF ubiquitin ligase complex(GO:0019005) |
| 0.2 | 5.6 | GO:0010494 | cytoplasmic stress granule(GO:0010494) |
| 0.1 | 5.6 | GO:0016592 | mediator complex(GO:0016592) |
| 0.3 | 5.5 | GO:0016602 | CCAAT-binding factor complex(GO:0016602) |
| 0.1 | 5.1 | GO:0005635 | nuclear envelope(GO:0005635) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 24.3 | GO:0004674 | protein serine/threonine kinase activity(GO:0004674) |
| 0.1 | 22.9 | GO:0004842 | ubiquitin-protein transferase activity(GO:0004842) |
| 0.1 | 19.2 | GO:0061630 | ubiquitin protein ligase activity(GO:0061630) |
| 0.1 | 11.7 | GO:0046982 | protein heterodimerization activity(GO:0046982) |
| 0.1 | 11.4 | GO:0004722 | protein serine/threonine phosphatase activity(GO:0004722) |
| 0.2 | 11.0 | GO:0004364 | glutathione transferase activity(GO:0004364) |
| 0.1 | 9.7 | GO:0004843 | thiol-dependent ubiquitin-specific protease activity(GO:0004843) thiol-dependent ubiquitinyl hydrolase activity(GO:0036459) |
| 0.6 | 8.4 | GO:0003978 | UDP-glucose 4-epimerase activity(GO:0003978) |
| 0.1 | 8.4 | GO:0000978 | RNA polymerase II core promoter proximal region sequence-specific DNA binding(GO:0000978) |
| 0.1 | 7.7 | GO:0061631 | ubiquitin conjugating enzyme activity(GO:0061631) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 1.9 | PID S1P META PATHWAY | Sphingosine 1-phosphate (S1P) pathway |
| 0.2 | 1.9 | PID RAC1 PATHWAY | RAC1 signaling pathway |
| 0.2 | 1.6 | PID MTOR 4PATHWAY | mTOR signaling pathway |
| 0.2 | 1.0 | PID CIRCADIAN PATHWAY | Circadian rhythm pathway |
| 0.2 | 0.7 | SIG CHEMOTAXIS | Genes related to chemotaxis |
| 0.1 | 0.7 | PID HDAC CLASSI PATHWAY | Signaling events mediated by HDAC Class I |
| 0.1 | 0.7 | PID PLK1 PATHWAY | PLK1 signaling events |
| 0.2 | 0.6 | PID HNF3B PATHWAY | FOXA2 and FOXA3 transcription factor networks |
| 0.1 | 0.5 | PID CXCR4 PATHWAY | CXCR4-mediated signaling events |
| 0.1 | 0.4 | PID BETA CATENIN NUC PATHWAY | Regulation of nuclear beta catenin signaling and target gene transcription |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 3.7 | REACTOME ABC FAMILY PROTEINS MEDIATED TRANSPORT | Genes involved in ABC-family proteins mediated transport |
| 0.3 | 2.7 | REACTOME PPARA ACTIVATES GENE EXPRESSION | Genes involved in PPARA Activates Gene Expression |
| 0.5 | 2.1 | REACTOME SYNTHESIS OF BILE ACIDS AND BILE SALTS VIA 7ALPHA HYDROXYCHOLESTEROL | Genes involved in Synthesis of bile acids and bile salts via 7alpha-hydroxycholesterol |
| 0.5 | 1.5 | REACTOME AMINO ACID SYNTHESIS AND INTERCONVERSION TRANSAMINATION | Genes involved in Amino acid synthesis and interconversion (transamination) |
| 0.3 | 1.3 | REACTOME CITRIC ACID CYCLE TCA CYCLE | Genes involved in Citric acid cycle (TCA cycle) |
| 0.2 | 1.1 | REACTOME METABOLISM OF VITAMINS AND COFACTORS | Genes involved in Metabolism of vitamins and cofactors |
| 0.3 | 1.0 | REACTOME HDL MEDIATED LIPID TRANSPORT | Genes involved in HDL-mediated lipid transport |
| 0.3 | 1.0 | REACTOME BMAL1 CLOCK NPAS2 ACTIVATES CIRCADIAN EXPRESSION | Genes involved in BMAL1:CLOCK/NPAS2 Activates Circadian Expression |
| 0.5 | 0.9 | REACTOME BILE ACID AND BILE SALT METABOLISM | Genes involved in Bile acid and bile salt metabolism |
| 0.3 | 0.9 | REACTOME SPHINGOLIPID DE NOVO BIOSYNTHESIS | Genes involved in Sphingolipid de novo biosynthesis |