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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT5G54230
Z-value: 1.07
Transcription factors associated with AT5G54230
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT5G54230
|
AT5G54230 | myb domain protein 49 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| MYB49 | arTal_v1_Chr5_-_22018061_22018061 | -0.28 | 3.4e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr5_+_19434758_19434758 Show fit | 1.19 |
AT5G47990.1
|
cytochrome P450, family 705, subfamily A, polypeptide 5 |
|
| arTal_v1_Chr3_-_1758807_1758807 Show fit | 1.13 |
AT3G05890.1
|
Low temperature and salt responsive protein family |
|
| arTal_v1_Chr5_+_1119937_1119937 Show fit | 1.11 |
AT5G04120.1
|
Phosphoglycerate mutase family protein |
|
| arTal_v1_Chr5_-_19040456_19040456 Show fit | 1.09 |
AT5G46900.1
|
Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein |
|
| arTal_v1_Chr4_+_7434199_7434199 Show fit | 1.06 |
AT4G12545.1
|
Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein |
|
| arTal_v1_Chr4_-_993039_993039 Show fit | 1.05 |
AT4G02270.1
|
root hair specific 13 |
|
| arTal_v1_Chr1_+_23331563_23331563 Show fit | 1.05 |
AT1G62980.1
|
expansin A18 |
|
| arTal_v1_Chr3_-_8007836_8007836 Show fit | 1.04 |
AT3G22600.1
|
Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein |
|
| arTal_v1_Chr5_+_4370692_4370692 Show fit | 1.03 |
AT5G13580.1
|
ABC-2 type transporter family protein |
|
| arTal_v1_Chr5_-_3172701_3172701 Show fit | 0.97 |
AT5G10130.1
|
Pollen Ole e 1 allergen and extensin family protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT5G54230
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 5.0 | GO:0010345 | suberin biosynthetic process(GO:0010345) |
| 0.0 | 2.7 | GO:0009699 | phenylpropanoid biosynthetic process(GO:0009699) |
| 0.0 | 2.0 | GO:0009736 | cytokinin-activated signaling pathway(GO:0009736) |
| 0.0 | 1.7 | GO:0045490 | pectin catabolic process(GO:0045490) |
| 0.0 | 1.7 | GO:0080167 | response to karrikin(GO:0080167) |
| 0.3 | 1.6 | GO:0006564 | L-serine biosynthetic process(GO:0006564) |
| 0.1 | 1.5 | GO:0010227 | floral organ abscission(GO:0010227) |
| 0.0 | 1.5 | GO:0016125 | sterol metabolic process(GO:0016125) |
| 0.1 | 1.4 | GO:0046688 | response to copper ion(GO:0046688) |
| 0.0 | 1.4 | GO:0043086 | negative regulation of catalytic activity(GO:0043086) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 6.0 | GO:0046658 | anchored component of plasma membrane(GO:0046658) |
| 0.0 | 4.4 | GO:0005618 | cell wall(GO:0005618) external encapsulating structure(GO:0030312) |
| 0.0 | 3.8 | GO:0009505 | plant-type cell wall(GO:0009505) |
| 0.0 | 2.5 | GO:0031225 | anchored component of membrane(GO:0031225) |
| 0.0 | 1.7 | GO:0009705 | plant-type vacuole membrane(GO:0009705) |
| 0.0 | 1.5 | GO:0005764 | lysosome(GO:0005764) |
| 0.0 | 1.3 | GO:0090406 | pollen tube(GO:0090406) |
| 0.3 | 1.0 | GO:0010316 | pyrophosphate-dependent phosphofructokinase complex(GO:0010316) |
| 0.1 | 1.0 | GO:0009986 | cell surface(GO:0009986) |
| 0.3 | 0.9 | GO:0009514 | glyoxysome(GO:0009514) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 5.7 | GO:0020037 | heme binding(GO:0020037) |
| 0.2 | 3.5 | GO:0052716 | hydroquinone:oxygen oxidoreductase activity(GO:0052716) |
| 0.0 | 3.0 | GO:0009055 | electron carrier activity(GO:0009055) |
| 0.1 | 2.3 | GO:0000156 | phosphorelay response regulator activity(GO:0000156) |
| 0.0 | 2.3 | GO:0004601 | peroxidase activity(GO:0004601) |
| 0.3 | 1.7 | GO:0042084 | 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) |
| 0.2 | 1.6 | GO:0090447 | glycerol-3-phosphate 2-O-acyltransferase activity(GO:0090447) |
| 0.0 | 1.6 | GO:0046910 | pectinesterase inhibitor activity(GO:0046910) |
| 0.0 | 1.5 | GO:0004197 | cysteine-type endopeptidase activity(GO:0004197) |
| 0.4 | 1.3 | GO:0000234 | phosphoethanolamine N-methyltransferase activity(GO:0000234) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 0.7 | PID CXCR4 PATHWAY | CXCR4-mediated signaling events |
| 0.2 | 0.5 | PID HIV NEF PATHWAY | HIV-1 Nef: Negative effector of Fas and TNF-alpha |
| 0.1 | 0.4 | PID MYC PATHWAY | C-MYC pathway |
| 0.1 | 0.4 | PID MET PATHWAY | Signaling events mediated by Hepatocyte Growth Factor Receptor (c-Met) |
| 0.1 | 0.2 | PID ECADHERIN NASCENT AJ PATHWAY | E-cadherin signaling in the nascent adherens junction |
| 0.1 | 0.2 | PID AURORA A PATHWAY | Aurora A signaling |
| 0.1 | 0.2 | PID TCPTP PATHWAY | Signaling events mediated by TCPTP |
| 0.0 | 0.2 | PID HIF1A PATHWAY | Hypoxic and oxygen homeostasis regulation of HIF-1-alpha |
| 0.0 | 0.2 | PID MTOR 4PATHWAY | mTOR signaling pathway |
| 0.1 | 0.1 | PID ARF6 DOWNSTREAM PATHWAY | Arf6 downstream pathway |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 0.6 | REACTOME GLYCOSPHINGOLIPID METABOLISM | Genes involved in Glycosphingolipid metabolism |
| 0.2 | 0.5 | REACTOME NOD1 2 SIGNALING PATHWAY | Genes involved in NOD1/2 Signaling Pathway |
| 0.1 | 0.5 | REACTOME G1 S SPECIFIC TRANSCRIPTION | Genes involved in G1/S-Specific Transcription |
| 0.1 | 0.2 | REACTOME OXYGEN DEPENDENT PROLINE HYDROXYLATION OF HYPOXIA INDUCIBLE FACTOR ALPHA | Genes involved in Oxygen-dependent Proline Hydroxylation of Hypoxia-inducible Factor Alpha |
| 0.1 | 0.2 | REACTOME HDL MEDIATED LIPID TRANSPORT | Genes involved in HDL-mediated lipid transport |
| 0.0 | 0.2 | REACTOME VEGF LIGAND RECEPTOR INTERACTIONS | Genes involved in VEGF ligand-receptor interactions |
| 0.0 | 0.2 | REACTOME METABOLISM OF NUCLEOTIDES | Genes involved in Metabolism of nucleotides |
| 0.0 | 0.2 | REACTOME POST TRANSLATIONAL PROTEIN MODIFICATION | Genes involved in Post-translational protein modification |
| 0.0 | 0.2 | REACTOME FACTORS INVOLVED IN MEGAKARYOCYTE DEVELOPMENT AND PLATELET PRODUCTION | Genes involved in Factors involved in megakaryocyte development and platelet production |
| 0.0 | 0.1 | REACTOME COPI MEDIATED TRANSPORT | Genes involved in COPI Mediated Transport |