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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT5G29000
Z-value: 1.02
Transcription factors associated with AT5G29000
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT5G29000
|
AT5G29000 | Homeodomain-like superfamily protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| PHL1 | arTal_v1_Chr5_-_11024865_11024978 | -0.16 | 5.8e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr1_+_9829261_9829261 Show fit | 1.55 |
AT1G28135.1
|
hypothetical protein |
|
| arTal_v1_Chr5_+_21240717_21240717 Show fit | 0.86 |
AT5G52310.1
|
low-temperature-responsive protein 78 (LTI78) / desiccation-responsive protein 29A (RD29A) |
|
| arTal_v1_Chr2_+_873506_873506 Show fit | 0.83 |
AT2G02990.1
|
ribonuclease 1 |
|
| arTal_v1_Chr3_+_11527756_11527756 Show fit | 0.68 |
AT3G29670.1
|
HXXXD-type acyl-transferase family protein |
|
| arTal_v1_Chr5_-_2961382_2961382 Show fit | 0.59 |
AT5G09530.1
|
hydroxyproline-rich glycoprotein family protein |
|
| arTal_v1_Chr2_+_13381767_13381767 Show fit | 0.58 |
AT2G31380.1
|
salt tolerance homologue |
|
| arTal_v1_Chr4_-_993039_993039 Show fit | 0.58 |
AT4G02270.1
|
root hair specific 13 |
|
| arTal_v1_Chr1_+_3019639_3019639 Show fit | 0.57 |
AT1G09350.1
|
galactinol synthase 3 |
|
| arTal_v1_Chr3_-_17475274_17475274 Show fit | 0.57 |
AT3G47420.3
AT3G47420.1 AT3G47420.2 |
putative glycerol-3-phosphate transporter 1 |
|
| arTal_v1_Chr5_+_1835047_1835047 Show fit | 0.57 |
AT5G06090.1
|
glycerol-3-phosphate acyltransferase 7 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT5G29000
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 1.7 | GO:0009718 | anthocyanin-containing compound biosynthetic process(GO:0009718) |
| 0.1 | 1.2 | GO:0046341 | CDP-diacylglycerol biosynthetic process(GO:0016024) CDP-diacylglycerol metabolic process(GO:0046341) |
| 0.1 | 1.0 | GO:0072506 | phosphate ion homeostasis(GO:0055062) trivalent inorganic anion homeostasis(GO:0072506) |
| 0.1 | 1.0 | GO:0006538 | glutamate catabolic process(GO:0006538) |
| 0.0 | 1.0 | GO:0072350 | tricarboxylic acid metabolic process(GO:0072350) |
| 0.1 | 0.9 | GO:0009608 | response to symbiont(GO:0009608) |
| 0.0 | 0.9 | GO:0006012 | galactose metabolic process(GO:0006012) |
| 0.0 | 0.8 | GO:0010030 | positive regulation of seed germination(GO:0010030) |
| 0.0 | 0.8 | GO:0010114 | response to red light(GO:0010114) |
| 0.2 | 0.7 | GO:0072351 | nicotianamine metabolic process(GO:0030417) nicotianamine biosynthetic process(GO:0030418) tricarboxylic acid biosynthetic process(GO:0072351) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 0.9 | GO:0019005 | SCF ubiquitin ligase complex(GO:0019005) |
| 0.1 | 0.6 | GO:0031588 | nucleotide-activated protein kinase complex(GO:0031588) |
| 0.0 | 0.6 | GO:0000781 | chromosome, telomeric region(GO:0000781) |
| 0.2 | 0.5 | GO:0005652 | nuclear lamina(GO:0005652) |
| 0.0 | 0.4 | GO:0031231 | integral component of peroxisomal membrane(GO:0005779) intrinsic component of peroxisomal membrane(GO:0031231) |
| 0.0 | 0.4 | GO:1903293 | protein serine/threonine phosphatase complex(GO:0008287) phosphatase complex(GO:1903293) |
| 0.0 | 0.3 | GO:0030686 | 90S preribosome(GO:0030686) |
| 0.0 | 0.3 | GO:0031012 | extracellular matrix(GO:0031012) |
| 0.0 | 0.3 | GO:0046540 | U4/U6 x U5 tri-snRNP complex(GO:0046540) |
| 0.0 | 0.2 | GO:0071012 | U2-type catalytic step 1 spliceosome(GO:0071006) catalytic step 1 spliceosome(GO:0071012) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 1.4 | GO:0090447 | glycerol-3-phosphate 2-O-acyltransferase activity(GO:0090447) |
| 0.1 | 1.2 | GO:0047216 | inositol 3-alpha-galactosyltransferase activity(GO:0047216) |
| 0.0 | 1.0 | GO:0008327 | methyl-CpG binding(GO:0008327) |
| 0.0 | 0.9 | GO:0042910 | xenobiotic transporter activity(GO:0042910) |
| 0.3 | 0.8 | GO:0050736 | O-malonyltransferase activity(GO:0050736) |
| 0.2 | 0.8 | GO:0050284 | sinapate 1-glucosyltransferase activity(GO:0050284) |
| 0.2 | 0.8 | GO:0033897 | ribonuclease T2 activity(GO:0033897) |
| 0.2 | 0.7 | GO:0030410 | nicotianamine synthase activity(GO:0030410) |
| 0.2 | 0.7 | GO:0005432 | calcium:sodium antiporter activity(GO:0005432) |
| 0.1 | 0.7 | GO:0008964 | phosphoenolpyruvate carboxylase activity(GO:0008964) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 0.4 | PID S1P S1P1 PATHWAY | S1P1 pathway |
| 0.1 | 0.4 | PID ECADHERIN NASCENT AJ PATHWAY | E-cadherin signaling in the nascent adherens junction |
| 0.0 | 0.2 | PID RAC1 PATHWAY | RAC1 signaling pathway |
| 0.0 | 0.1 | PID HDAC CLASSII PATHWAY | Signaling events mediated by HDAC Class II |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 0.6 | REACTOME CHEMOKINE RECEPTORS BIND CHEMOKINES | Genes involved in Chemokine receptors bind chemokines |
| 0.2 | 0.5 | REACTOME GABA SYNTHESIS RELEASE REUPTAKE AND DEGRADATION | Genes involved in GABA synthesis, release, reuptake and degradation |
| 0.1 | 0.3 | REACTOME METABOLISM OF NUCLEOTIDES | Genes involved in Metabolism of nucleotides |
| 0.0 | 0.3 | REACTOME ABCA TRANSPORTERS IN LIPID HOMEOSTASIS | Genes involved in ABCA transporters in lipid homeostasis |
| 0.1 | 0.2 | REACTOME HDL MEDIATED LIPID TRANSPORT | Genes involved in HDL-mediated lipid transport |
| 0.1 | 0.2 | REACTOME APOPTOSIS INDUCED DNA FRAGMENTATION | Genes involved in Apoptosis induced DNA fragmentation |
| 0.1 | 0.2 | REACTOME VEGF LIGAND RECEPTOR INTERACTIONS | Genes involved in VEGF ligand-receptor interactions |
| 0.0 | 0.1 | REACTOME METABOLISM OF VITAMINS AND COFACTORS | Genes involved in Metabolism of vitamins and cofactors |
| 0.0 | 0.1 | REACTOME GENERIC TRANSCRIPTION PATHWAY | Genes involved in Generic Transcription Pathway |
| 0.0 | 0.1 | REACTOME GLYCEROPHOSPHOLIPID BIOSYNTHESIS | Genes involved in Glycerophospholipid biosynthesis |