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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT5G56110
Z-value: 2.14
Transcription factors associated with AT5G56110
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT5G56110
|
AT5G56110 | myb domain protein 103 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| MYB80 | arTal_v1_Chr5_+_22719191_22719191 | -0.04 | 8.9e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr1_-_27569823_27569823 Show fit | 3.86 |
AT1G73330.1
|
drought-repressed 4 |
|
| arTal_v1_Chr5_+_19434758_19434758 Show fit | 3.59 |
AT5G47990.1
|
cytochrome P450, family 705, subfamily A, polypeptide 5 |
|
| arTal_v1_Chr4_+_2449434_2449434 Show fit | 3.28 |
AT4G04840.1
|
methionine sulfoxide reductase B6 |
|
| arTal_v1_Chr5_+_1119937_1119937 Show fit | 3.14 |
AT5G04120.1
|
Phosphoglycerate mutase family protein |
|
| arTal_v1_Chr5_-_19036938_19036938 Show fit | 3.12 |
AT5G46890.1
|
Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein |
|
| arTal_v1_Chr4_+_7434199_7434199 Show fit | 3.05 |
AT4G12545.1
|
Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein |
|
| arTal_v1_Chr2_-_6960216_6960216 Show fit | 2.91 |
AT2G16005.1
|
MD-2-related lipid recognition domain-containing protein |
|
| arTal_v1_Chr5_-_15167859_15167864 Show fit | 2.79 |
AT5G38020.2
AT5G38020.1 |
S-adenosyl-L-methionine-dependent methyltransferases superfamily protein |
|
| arTal_v1_Chr5_+_19428888_19428888 Show fit | 2.76 |
AT5G47980.1
|
HXXXD-type acyl-transferase family protein |
|
| arTal_v1_Chr5_-_19040456_19040456 Show fit | 2.71 |
AT5G46900.1
|
Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT5G56110
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 10.9 | GO:0010200 | response to chitin(GO:0010200) |
| 0.8 | 10.1 | GO:2000122 | negative regulation of stomatal complex development(GO:2000122) |
| 0.3 | 7.9 | GO:0010345 | suberin biosynthetic process(GO:0010345) |
| 0.3 | 6.6 | GO:0030091 | protein repair(GO:0030091) |
| 1.3 | 5.3 | GO:0080003 | thalianol metabolic process(GO:0080003) |
| 0.2 | 5.2 | GO:0005992 | trehalose biosynthetic process(GO:0005992) |
| 1.1 | 4.6 | GO:0046475 | glycerophospholipid catabolic process(GO:0046475) |
| 0.4 | 4.4 | GO:0010466 | negative regulation of peptidase activity(GO:0010466) regulation of peptidase activity(GO:0052547) |
| 0.1 | 4.4 | GO:0045490 | pectin catabolic process(GO:0045490) |
| 0.1 | 4.2 | GO:0010102 | post-embryonic root morphogenesis(GO:0010101) lateral root morphogenesis(GO:0010102) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 47.4 | GO:0005576 | extracellular region(GO:0005576) |
| 0.1 | 25.7 | GO:0031225 | anchored component of membrane(GO:0031225) |
| 0.0 | 13.8 | GO:0005618 | cell wall(GO:0005618) external encapsulating structure(GO:0030312) |
| 0.3 | 11.6 | GO:0010319 | stromule(GO:0010319) |
| 0.0 | 5.1 | GO:0009705 | plant-type vacuole membrane(GO:0009705) |
| 0.4 | 4.2 | GO:0048226 | Casparian strip(GO:0048226) |
| 0.1 | 3.6 | GO:0005764 | lysosome(GO:0005764) |
| 0.0 | 3.4 | GO:0090406 | pollen tube(GO:0090406) |
| 0.5 | 2.2 | GO:0010316 | pyrophosphate-dependent phosphofructokinase complex(GO:0010316) |
| 0.1 | 1.8 | GO:0012511 | monolayer-surrounded lipid storage body(GO:0012511) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 10.5 | GO:0004089 | carbonate dehydratase activity(GO:0004089) |
| 0.2 | 7.8 | GO:0003993 | acid phosphatase activity(GO:0003993) |
| 0.6 | 7.1 | GO:0033743 | peptide-methionine (R)-S-oxide reductase activity(GO:0033743) |
| 0.1 | 5.9 | GO:0004601 | peroxidase activity(GO:0004601) |
| 0.3 | 5.7 | GO:0052716 | hydroquinone:oxygen oxidoreductase activity(GO:0052716) |
| 0.2 | 4.9 | GO:0004805 | trehalose-phosphatase activity(GO:0004805) |
| 0.2 | 4.8 | GO:0051539 | 4 iron, 4 sulfur cluster binding(GO:0051539) |
| 0.9 | 4.7 | 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) |
| 0.1 | 4.7 | GO:0008171 | O-methyltransferase activity(GO:0008171) |
| 0.1 | 4.7 | GO:0004364 | glutathione transferase activity(GO:0004364) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.2 | 10.0 | PID CMYB PATHWAY | C-MYB transcription factor network |
| 0.9 | 2.6 | PID HIV NEF PATHWAY | HIV-1 Nef: Negative effector of Fas and TNF-alpha |
| 0.3 | 1.8 | NABA MATRISOME ASSOCIATED | Ensemble of genes encoding ECM-associated proteins including ECM-affilaited proteins, ECM regulators and secreted factors |
| 0.6 | 1.7 | PID AURORA A PATHWAY | Aurora A signaling |
| 0.1 | 1.3 | PID MYC ACTIV PATHWAY | Validated targets of C-MYC transcriptional activation |
| 0.3 | 1.2 | ST ERK1 ERK2 MAPK PATHWAY | ERK1/ERK2 MAPK Pathway |
| 0.3 | 1.0 | ST WNT BETA CATENIN PATHWAY | Wnt/beta-catenin Pathway |
| 0.1 | 0.4 | PID VEGF VEGFR PATHWAY | VEGF and VEGFR signaling network |
| 0.1 | 0.4 | NABA ECM GLYCOPROTEINS | Genes encoding structural ECM glycoproteins |
| 0.1 | 0.3 | PID HIF1A PATHWAY | Hypoxic and oxygen homeostasis regulation of HIF-1-alpha |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.7 | 10.4 | REACTOME REVERSIBLE HYDRATION OF CARBON DIOXIDE | Genes involved in Reversible Hydration of Carbon Dioxide |
| 0.5 | 2.6 | REACTOME CELL DEATH SIGNALLING VIA NRAGE NRIF AND NADE | Genes involved in Cell death signalling via NRAGE, NRIF and NADE |
| 0.3 | 1.3 | REACTOME GLUCONEOGENESIS | Genes involved in Gluconeogenesis |
| 0.2 | 0.4 | REACTOME SEMAPHORIN INTERACTIONS | Genes involved in Semaphorin interactions |
| 0.0 | 0.4 | REACTOME MEIOTIC RECOMBINATION | Genes involved in Meiotic Recombination |
| 0.3 | 0.3 | REACTOME G ALPHA1213 SIGNALLING EVENTS | Genes involved in G alpha (12/13) signalling events |
| 0.1 | 0.3 | REACTOME REGULATION OF HYPOXIA INDUCIBLE FACTOR HIF BY OXYGEN | Genes involved in Regulation of Hypoxia-inducible Factor (HIF) by Oxygen |
| 0.1 | 0.3 | REACTOME HDL MEDIATED LIPID TRANSPORT | Genes involved in HDL-mediated lipid transport |
| 0.1 | 0.3 | REACTOME TRANSPORT OF MATURE MRNA DERIVED FROM AN INTRONLESS TRANSCRIPT | Genes involved in Transport of Mature mRNA Derived from an Intronless Transcript |
| 0.1 | 0.3 | REACTOME MITOCHONDRIAL PROTEIN IMPORT | Genes involved in Mitochondrial Protein Import |