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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT3G28920
Z-value: 1.50
Transcription factors associated with AT3G28920
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT3G28920
|
AT3G28920 | homeobox protein 34 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| HB34 | arTal_v1_Chr3_-_10941833_10941833 | -0.41 | 1.5e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr4_-_14827211_14827211 Show fit | 2.35 |
AT4G30280.1
|
xyloglucan endotransglucosylase/hydrolase 18 |
|
| arTal_v1_Chr4_-_7421828_7421828 Show fit | 2.13 |
AT4G12520.1
|
Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein |
|
| arTal_v1_Chr1_-_7396773_7396823 Show fit | 2.10 |
AT1G21120.1
AT1G21120.2 |
O-methyltransferase family protein |
|
| arTal_v1_Chr5_+_19428888_19428888 Show fit | 1.96 |
AT5G47980.1
|
HXXXD-type acyl-transferase family protein |
|
| arTal_v1_Chr5_-_19036938_19036938 Show fit | 1.90 |
AT5G46890.1
|
Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein |
|
| arTal_v1_Chr3_-_17008528_17008528 Show fit | 1.77 |
AT3G46280.1
|
kinase-like protein |
|
| arTal_v1_Chr5_-_19040456_19040456 Show fit | 1.67 |
AT5G46900.1
|
Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein |
|
| arTal_v1_Chr5_-_15167859_15167864 Show fit | 1.67 |
AT5G38020.2
AT5G38020.1 |
S-adenosyl-L-methionine-dependent methyltransferases superfamily protein |
|
| arTal_v1_Chr5_+_26266180_26266266 Show fit | 1.64 |
AT5G65690.1
AT5G65690.2 AT5G65690.3 AT5G65690.4 |
phosphoenolpyruvate carboxykinase 2 |
|
| arTal_v1_Chr1_-_1527360_1527360 Show fit | 1.63 |
AT1G05250.1
|
Peroxidase superfamily protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT3G28920
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 9.1 | GO:0045490 | pectin catabolic process(GO:0045490) |
| 0.1 | 6.6 | GO:0009873 | ethylene-activated signaling pathway(GO:0009873) |
| 0.4 | 5.6 | GO:2000122 | negative regulation of stomatal complex development(GO:2000122) |
| 0.0 | 4.7 | GO:0010200 | response to chitin(GO:0010200) |
| 0.2 | 3.8 | GO:0042343 | indole glucosinolate metabolic process(GO:0042343) |
| 0.1 | 3.4 | GO:0010102 | post-embryonic root morphogenesis(GO:0010101) lateral root morphogenesis(GO:0010102) |
| 0.5 | 2.7 | GO:1903175 | fatty alcohol biosynthetic process(GO:1903175) |
| 0.1 | 2.4 | GO:0009817 | defense response to fungus, incompatible interaction(GO:0009817) |
| 0.0 | 2.3 | GO:0010411 | xyloglucan metabolic process(GO:0010411) |
| 0.2 | 2.0 | GO:0035336 | long-chain fatty-acyl-CoA metabolic process(GO:0035336) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 57.0 | GO:0005576 | extracellular region(GO:0005576) |
| 0.0 | 6.9 | GO:0046658 | anchored component of plasma membrane(GO:0046658) |
| 0.1 | 6.0 | GO:0010319 | stromule(GO:0010319) |
| 0.1 | 2.6 | GO:0005764 | lysosome(GO:0005764) |
| 0.0 | 2.5 | GO:0031225 | anchored component of membrane(GO:0031225) |
| 0.0 | 2.3 | GO:0009705 | plant-type vacuole membrane(GO:0009705) |
| 0.0 | 1.6 | GO:0009505 | plant-type cell wall(GO:0009505) |
| 0.0 | 1.4 | GO:0030173 | integral component of Golgi membrane(GO:0030173) intrinsic component of Golgi membrane(GO:0031228) |
| 0.1 | 1.3 | GO:0072686 | mitotic spindle(GO:0072686) |
| 0.4 | 1.1 | GO:0009514 | glyoxysome(GO:0009514) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 5.9 | GO:0004089 | carbonate dehydratase activity(GO:0004089) |
| 0.1 | 5.7 | GO:0046910 | pectinesterase inhibitor activity(GO:0046910) |
| 0.2 | 4.7 | GO:0005372 | water transmembrane transporter activity(GO:0005372) water channel activity(GO:0015250) |
| 0.0 | 4.4 | GO:0004497 | monooxygenase activity(GO:0004497) |
| 0.1 | 4.1 | GO:0016759 | cellulose synthase activity(GO:0016759) |
| 0.0 | 4.1 | GO:0004601 | peroxidase activity(GO:0004601) |
| 0.2 | 3.6 | GO:0052716 | hydroquinone:oxygen oxidoreductase activity(GO:0052716) |
| 0.1 | 3.6 | GO:0004565 | beta-galactosidase activity(GO:0004565) galactosidase activity(GO:0015925) |
| 0.0 | 3.5 | GO:0016747 | transferase activity, transferring acyl groups other than amino-acyl groups(GO:0016747) |
| 0.7 | 3.4 | GO:0008705 | 5-methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase activity(GO:0003871) methionine synthase activity(GO:0008705) 5-methyltetrahydrofolate-dependent methyltransferase activity(GO:0042084) 5-methyltetrahydropteroyltri-L-glutamate-dependent methyltransferase activity(GO:0042085) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.7 | 5.5 | PID CMYB PATHWAY | C-MYB transcription factor network |
| 0.4 | 1.6 | PID REG GR PATHWAY | Glucocorticoid receptor regulatory network |
| 0.2 | 1.6 | NABA ECM GLYCOPROTEINS | Genes encoding structural ECM glycoproteins |
| 0.5 | 1.4 | PID AURORA A PATHWAY | Aurora A signaling |
| 0.2 | 0.7 | ST WNT BETA CATENIN PATHWAY | Wnt/beta-catenin Pathway |
| 0.1 | 0.4 | PID HDAC CLASSII PATHWAY | Signaling events mediated by HDAC Class II |
| 0.0 | 0.3 | SIG INSULIN RECEPTOR PATHWAY IN CARDIAC MYOCYTES | Genes related to the insulin receptor pathway |
| 0.0 | 0.1 | PID TCPTP PATHWAY | Signaling events mediated by TCPTP |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.9 | 5.5 | REACTOME REVERSIBLE HYDRATION OF CARBON DIOXIDE | Genes involved in Reversible Hydration of Carbon Dioxide |
| 0.4 | 1.6 | REACTOME GLUCONEOGENESIS | Genes involved in Gluconeogenesis |
| 0.1 | 0.5 | REACTOME CHEMOKINE RECEPTORS BIND CHEMOKINES | Genes involved in Chemokine receptors bind chemokines |
| 0.1 | 0.4 | REACTOME METABOLISM OF NUCLEOTIDES | Genes involved in Metabolism of nucleotides |
| 0.1 | 0.3 | REACTOME SIGNALING BY ROBO RECEPTOR | Genes involved in Signaling by Robo receptor |
| 0.1 | 0.3 | REACTOME E2F ENABLED INHIBITION OF PRE REPLICATION COMPLEX FORMATION | Genes involved in E2F-enabled inhibition of pre-replication complex formation |
| 0.0 | 0.3 | REACTOME TRANSCRIPTIONAL REGULATION OF WHITE ADIPOCYTE DIFFERENTIATION | Genes involved in Transcriptional Regulation of White Adipocyte Differentiation |
| 0.0 | 0.3 | REACTOME FACTORS INVOLVED IN MEGAKARYOCYTE DEVELOPMENT AND PLATELET PRODUCTION | Genes involved in Factors involved in megakaryocyte development and platelet production |
| 0.1 | 0.2 | REACTOME SEMAPHORIN INTERACTIONS | Genes involved in Semaphorin interactions |
| 0.1 | 0.2 | REACTOME HDL MEDIATED LIPID TRANSPORT | Genes involved in HDL-mediated lipid transport |