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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT1G50640
Z-value: 1.04
Transcription factors associated with AT1G50640
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT1G50640
|
AT1G50640 | ethylene responsive element binding factor 3 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| ERF3 | arTal_v1_Chr1_-_18758708_18758708 | -0.40 | 1.6e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr3_-_2699420_2699420 Show fit | 1.37 |
AT3G08860.1
|
PYRIMIDINE 4 |
|
| arTal_v1_Chr3_-_2699257_2699257 Show fit | 1.37 |
AT3G08860.2
|
PYRIMIDINE 4 |
|
| arTal_v1_Chr2_+_9126263_9126263 Show fit | 1.27 |
AT2G21320.1
|
B-box zinc finger family protein |
|
| arTal_v1_Chr2_-_16603059_16603061 Show fit | 1.20 |
AT2G39800.2
AT2G39800.4 AT2G39800.3 |
delta1-pyrroline-5-carboxylate synthase 1 |
|
| arTal_v1_Chr4_+_12916926_12916926 Show fit | 1.18 |
AT4G25200.1
|
mitochondrion-localized small heat shock protein 23.6 |
|
| arTal_v1_Chr3_+_20612693_20612693 Show fit | 1.14 |
AT3G55580.1
|
Regulator of chromosome condensation (RCC1) family protein |
|
| arTal_v1_Chr5_-_8444101_8444101 Show fit | 1.09 |
AT5G24660.1
|
response to low sulfur 2 |
|
| arTal_v1_Chr2_-_16603319_16603319 Show fit | 1.08 |
AT2G39800.1
|
delta1-pyrroline-5-carboxylate synthase 1 |
|
| arTal_v1_Chr3_-_22907958_22907958 Show fit | 0.94 |
AT3G61880.1
AT3G61880.2 |
cytochrome p450 78a9 |
|
| arTal_v1_Chr1_+_3066674_3066753 Show fit | 0.93 |
AT1G09500.1
AT1G09500.2 AT1G09500.3 |
NAD(P)-binding Rossmann-fold superfamily protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT1G50640
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.6 | 3.3 | GO:0055129 | L-proline biosynthetic process(GO:0055129) |
| 0.1 | 3.2 | GO:0043562 | cellular response to nitrogen levels(GO:0043562) |
| 0.2 | 2.6 | GO:0010100 | negative regulation of photomorphogenesis(GO:0010100) |
| 0.2 | 1.7 | GO:0045736 | negative regulation of cyclin-dependent protein serine/threonine kinase activity(GO:0045736) negative regulation of cyclin-dependent protein kinase activity(GO:1904030) |
| 0.1 | 1.7 | GO:0015996 | chlorophyll catabolic process(GO:0015996) |
| 0.2 | 1.5 | GO:0048363 | mucilage pectin metabolic process(GO:0048363) |
| 0.0 | 1.2 | GO:0000381 | regulation of alternative mRNA splicing, via spliceosome(GO:0000381) |
| 0.2 | 1.1 | GO:0010438 | cellular response to sulfur starvation(GO:0010438) |
| 0.1 | 1.1 | GO:0051017 | actin filament bundle assembly(GO:0051017) actin filament bundle organization(GO:0061572) |
| 0.0 | 1.1 | GO:0048235 | pollen sperm cell differentiation(GO:0048235) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 4.6 | GO:0000790 | nuclear chromatin(GO:0000790) |
| 0.0 | 3.4 | GO:0009535 | chloroplast thylakoid membrane(GO:0009535) |
| 0.0 | 1.7 | GO:0009706 | chloroplast inner membrane(GO:0009706) |
| 0.0 | 1.2 | GO:0016607 | nuclear speck(GO:0016607) |
| 0.1 | 1.1 | GO:0009538 | photosystem I reaction center(GO:0009538) |
| 0.0 | 0.9 | GO:0009898 | cytoplasmic side of plasma membrane(GO:0009898) |
| 0.3 | 0.8 | GO:0005652 | nuclear lamina(GO:0005652) |
| 0.1 | 0.8 | GO:0005884 | actin filament(GO:0005884) |
| 0.0 | 0.8 | GO:0009654 | photosystem II oxygen evolving complex(GO:0009654) |
| 0.1 | 0.7 | GO:0001673 | male germ cell nucleus(GO:0001673) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 4.8 | GO:0000978 | RNA polymerase II core promoter proximal region sequence-specific DNA binding(GO:0000978) |
| 0.8 | 3.3 | GO:0004350 | glutamate 5-kinase activity(GO:0004349) glutamate-5-semialdehyde dehydrogenase activity(GO:0004350) |
| 0.2 | 2.5 | GO:0008453 | alanine-glyoxylate transaminase activity(GO:0008453) |
| 0.2 | 1.7 | GO:0030291 | cyclin-dependent protein serine/threonine kinase inhibitor activity(GO:0004861) protein serine/threonine kinase inhibitor activity(GO:0030291) |
| 0.1 | 1.5 | GO:0004022 | alcohol dehydrogenase (NAD) activity(GO:0004022) |
| 0.1 | 1.2 | GO:0009882 | blue light photoreceptor activity(GO:0009882) |
| 0.0 | 1.2 | GO:0017137 | Rab GTPase binding(GO:0017137) |
| 0.0 | 1.0 | GO:0000156 | phosphorelay response regulator activity(GO:0000156) |
| 0.0 | 1.0 | GO:0042910 | xenobiotic transporter activity(GO:0042910) |
| 0.2 | 0.9 | GO:0010277 | chlorophyllide a oxygenase [overall] activity(GO:0010277) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 0.4 | SIG PIP3 SIGNALING IN CARDIAC MYOCTES | Genes related to PIP3 signaling in cardiac myocytes |
| 0.0 | 0.4 | PID CXCR4 PATHWAY | CXCR4-mediated signaling events |
| 0.0 | 0.4 | PID MYC ACTIV PATHWAY | Validated targets of C-MYC transcriptional activation |
| 0.1 | 0.3 | PID CIRCADIAN PATHWAY | Circadian rhythm pathway |
| 0.1 | 0.2 | PID HNF3B PATHWAY | FOXA2 and FOXA3 transcription factor networks |
| 0.0 | 0.2 | PID HES HEY PATHWAY | Notch-mediated HES/HEY network |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 0.7 | REACTOME L1CAM INTERACTIONS | Genes involved in L1CAM interactions |
| 0.1 | 0.3 | REACTOME BMAL1 CLOCK NPAS2 ACTIVATES CIRCADIAN EXPRESSION | Genes involved in BMAL1:CLOCK/NPAS2 Activates Circadian Expression |
| 0.1 | 0.3 | REACTOME DOPAMINE NEUROTRANSMITTER RELEASE CYCLE | Genes involved in Dopamine Neurotransmitter Release Cycle |
| 0.1 | 0.2 | REACTOME ABACAVIR TRANSPORT AND METABOLISM | Genes involved in Abacavir transport and metabolism |
| 0.0 | 0.2 | REACTOME RNA POL II TRANSCRIPTION PRE INITIATION AND PROMOTER OPENING | Genes involved in RNA Polymerase II Transcription Pre-Initiation And Promoter Opening |
| 0.0 | 0.1 | REACTOME PRE NOTCH EXPRESSION AND PROCESSING | Genes involved in Pre-NOTCH Expression and Processing |
| 0.0 | 0.1 | REACTOME SYNTHESIS OF BILE ACIDS AND BILE SALTS | Genes involved in Synthesis of bile acids and bile salts |
| 0.0 | 0.1 | REACTOME GOLGI ASSOCIATED VESICLE BIOGENESIS | Genes involved in Golgi Associated Vesicle Biogenesis |
| 0.0 | 0.1 | REACTOME AMINO ACID SYNTHESIS AND INTERCONVERSION TRANSAMINATION | Genes involved in Amino acid synthesis and interconversion (transamination) |
| 0.0 | 0.0 | REACTOME INTEGRATION OF ENERGY METABOLISM | Genes involved in Integration of energy metabolism |