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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT1G12610
Z-value: 1.26
Transcription factors associated with AT1G12610
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT1G12610
|
AT1G12610 | Integrase-type DNA-binding superfamily protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| DDF1 | arTal_v1_Chr1_-_4291017_4291017 | -0.53 | 5.4e-02 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr5_+_5209717_5209717 Show fit | 3.55 |
AT5G15960.1
|
stress-responsive protein (KIN1) / stress-induced protein (KIN1) |
|
| arTal_v1_Chr5_+_21240717_21240717 Show fit | 3.23 |
AT5G52310.1
|
low-temperature-responsive protein 78 (LTI78) / desiccation-responsive protein 29A (RD29A) |
|
| arTal_v1_Chr1_+_3019639_3019639 Show fit | 2.99 |
AT1G09350.1
|
galactinol synthase 3 |
|
| arTal_v1_Chr1_+_3020221_3020221 Show fit | 2.84 |
AT1G09350.2
|
galactinol synthase 3 |
|
| arTal_v1_Chr5_+_5211719_5211719 Show fit | 2.72 |
AT5G15970.1
|
stress-responsive protein (KIN2) / stress-induced protein (KIN2) / cold-responsive protein (COR6.6) / cold-regulated protein (COR6.6) |
|
| arTal_v1_Chr1_-_5765798_5765798 Show fit | 2.56 |
AT1G16850.1
|
transmembrane protein |
|
| arTal_v1_Chr4_+_14954204_14954204 Show fit | 2.52 |
AT4G30650.1
|
Low temperature and salt responsive protein family |
|
| arTal_v1_Chr4_-_15954803_15954803 Show fit | 2.42 |
AT4G33070.1
|
Thiamine pyrophosphate dependent pyruvate decarboxylase family protein |
|
| arTal_v1_Chr3_+_18940643_18940643 Show fit | 2.27 |
AT3G50970.1
|
dehydrin family protein |
|
| arTal_v1_Chr5_-_22712441_22712441 Show fit | 2.24 |
AT5G56080.1
|
nicotianamine synthase 2 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT1G12610
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 12.8 | GO:0009631 | cold acclimation(GO:0009631) |
| 0.3 | 8.6 | GO:0006012 | galactose metabolic process(GO:0006012) |
| 0.0 | 6.8 | GO:0006970 | response to osmotic stress(GO:0006970) |
| 1.1 | 5.3 | GO:0072708 | response to sorbitol(GO:0072708) |
| 0.1 | 3.4 | GO:0055072 | iron ion homeostasis(GO:0055072) |
| 0.2 | 3.2 | GO:0009608 | response to symbiont(GO:0009608) |
| 0.8 | 3.1 | GO:0030417 | nicotianamine metabolic process(GO:0030417) nicotianamine biosynthetic process(GO:0030418) tricarboxylic acid biosynthetic process(GO:0072351) |
| 0.0 | 2.7 | GO:0006972 | hyperosmotic response(GO:0006972) |
| 0.2 | 2.5 | GO:0006538 | glutamate catabolic process(GO:0006538) |
| 0.1 | 2.2 | GO:0010540 | basipetal auxin transport(GO:0010540) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 20.8 | GO:0009506 | cell-cell junction(GO:0005911) plasmodesma(GO:0009506) cell junction(GO:0030054) symplast(GO:0055044) |
| 0.0 | 2.7 | GO:0080008 | Cul4-RING E3 ubiquitin ligase complex(GO:0080008) |
| 0.0 | 2.1 | GO:0000138 | Golgi trans cisterna(GO:0000138) |
| 0.0 | 1.7 | GO:0009527 | plastid outer membrane(GO:0009527) |
| 0.1 | 1.5 | GO:0071782 | endoplasmic reticulum tubular network(GO:0071782) endoplasmic reticulum subcompartment(GO:0098827) |
| 0.2 | 1.2 | GO:0090395 | plant cell papilla(GO:0090395) |
| 0.2 | 0.9 | GO:0031357 | intrinsic component of plastid inner membrane(GO:0031352) integral component of plastid inner membrane(GO:0031353) intrinsic component of chloroplast inner membrane(GO:0031356) integral component of chloroplast inner membrane(GO:0031357) |
| 0.0 | 0.8 | GO:0019005 | SCF ubiquitin ligase complex(GO:0019005) |
| 0.0 | 0.7 | GO:0048471 | perinuclear region of cytoplasm(GO:0048471) |
| 0.0 | 0.7 | GO:0005665 | DNA-directed RNA polymerase II, core complex(GO:0005665) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.8 | 7.0 | GO:0047216 | inositol 3-alpha-galactosyltransferase activity(GO:0047216) |
| 0.3 | 5.3 | GO:0016157 | sucrose synthase activity(GO:0016157) |
| 0.0 | 3.6 | GO:0042803 | protein homodimerization activity(GO:0042803) |
| 0.8 | 3.1 | GO:0030410 | nicotianamine synthase activity(GO:0030410) |
| 0.3 | 3.1 | GO:0000293 | ferric-chelate reductase activity(GO:0000293) oxidoreductase activity, oxidizing metal ions, NAD or NADP as acceptor(GO:0016723) |
| 0.1 | 3.1 | GO:0004724 | magnesium-dependent protein serine/threonine phosphatase activity(GO:0004724) |
| 0.1 | 2.8 | GO:0022821 | potassium ion antiporter activity(GO:0022821) |
| 0.3 | 2.7 | GO:0004351 | glutamate decarboxylase activity(GO:0004351) |
| 0.0 | 2.0 | GO:0001159 | core promoter proximal region sequence-specific DNA binding(GO:0000987) core promoter proximal region DNA binding(GO:0001159) |
| 0.3 | 1.9 | GO:0050062 | long-chain-fatty-acyl-CoA reductase activity(GO:0050062) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 1.1 | PID MTOR 4PATHWAY | mTOR signaling pathway |
| 0.0 | 0.5 | PID ATR PATHWAY | ATR signaling pathway |
| 0.1 | 0.2 | PID HNF3B PATHWAY | FOXA2 and FOXA3 transcription factor networks |
| 0.1 | 0.2 | PID AMB2 NEUTROPHILS PATHWAY | amb2 Integrin signaling |
| 0.0 | 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 |
|---|---|---|---|
| 0.6 | 1.9 | REACTOME GABA SYNTHESIS RELEASE REUPTAKE AND DEGRADATION | Genes involved in GABA synthesis, release, reuptake and degradation |
| 0.1 | 0.9 | REACTOME LIPID DIGESTION MOBILIZATION AND TRANSPORT | Genes involved in Lipid digestion, mobilization, and transport |
| 0.1 | 0.5 | REACTOME PI METABOLISM | Genes involved in PI Metabolism |
| 0.1 | 0.5 | REACTOME POL SWITCHING | Genes involved in Polymerase switching |
| 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 ABACAVIR TRANSPORT AND METABOLISM | Genes involved in Abacavir transport and metabolism |