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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT4G01280
Z-value: 1.66
Transcription factors associated with AT4G01280
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT4G01280
|
AT4G01280 | Homeodomain-like superfamily protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| AT4G01280 | arTal_v1_Chr4_+_535198_535241 | -0.48 | 8.5e-02 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr5_+_6833564_6833659 Show fit | 2.08 |
AT5G20250.2
AT5G20250.1 AT5G20250.4 AT5G20250.3 |
Raffinose synthase family protein |
|
| arTal_v1_Chr5_+_19434758_19434758 Show fit | 1.82 |
AT5G47990.1
|
cytochrome P450, family 705, subfamily A, polypeptide 5 |
|
| arTal_v1_Chr5_+_16441808_16441808 Show fit | 1.76 |
AT5G41080.2
|
PLC-like phosphodiesterases superfamily protein |
|
| arTal_v1_Chr5_+_16441655_16441655 Show fit | 1.72 |
AT5G41080.1
|
PLC-like phosphodiesterases superfamily protein |
|
| arTal_v1_Chr5_+_19183523_19183571 Show fit | 1.68 |
AT5G47240.2
AT5G47240.1 |
nudix hydrolase homolog 8 |
|
| arTal_v1_Chr3_-_12451556_12451556 Show fit | 1.64 |
AT3G30775.2
AT3G30775.1 |
Methylenetetrahydrofolate reductase family protein |
|
| arTal_v1_Chr5_-_19036938_19036938 Show fit | 1.63 |
AT5G46890.1
|
Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein |
|
| arTal_v1_Chr4_+_2449434_2449434 Show fit | 1.50 |
AT4G04840.1
|
methionine sulfoxide reductase B6 |
|
| arTal_v1_Chr5_+_7664871_7664871 Show fit | 1.42 |
AT5G22920.2
AT5G22920.1 |
CHY-type/CTCHY-type/RING-type Zinc finger protein |
|
| arTal_v1_Chr4_+_6826587_6826587 Show fit | 1.42 |
AT4G11190.1
|
Disease resistance-responsive (dirigent-like protein) family protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT4G01280
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 11.1 | GO:0071456 | cellular response to hypoxia(GO:0071456) |
| 0.0 | 5.9 | GO:0010200 | response to chitin(GO:0010200) |
| 0.1 | 4.8 | GO:0009736 | cytokinin-activated signaling pathway(GO:0009736) |
| 0.9 | 3.6 | GO:0080003 | thalianol metabolic process(GO:0080003) |
| 0.9 | 3.5 | GO:0046475 | glycerophospholipid catabolic process(GO:0046475) |
| 0.6 | 2.9 | GO:0019310 | inositol catabolic process(GO:0019310) |
| 0.2 | 2.8 | GO:0015749 | monosaccharide transport(GO:0015749) |
| 0.0 | 2.8 | GO:0045490 | pectin catabolic process(GO:0045490) |
| 0.1 | 2.7 | GO:0030388 | fructose 1,6-bisphosphate metabolic process(GO:0030388) |
| 0.1 | 2.3 | GO:2000032 | regulation of morphogenesis of a branching structure(GO:0060688) regulation of secondary shoot formation(GO:2000032) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 6.2 | GO:0031225 | anchored component of membrane(GO:0031225) |
| 0.2 | 3.0 | GO:0016602 | CCAAT-binding factor complex(GO:0016602) |
| 0.0 | 2.2 | GO:0005811 | lipid particle(GO:0005811) |
| 0.1 | 1.6 | GO:0005685 | U1 snRNP(GO:0005685) |
| 0.0 | 1.1 | GO:0019005 | SCF ubiquitin ligase complex(GO:0019005) |
| 0.2 | 1.0 | GO:0071818 | BAT3 complex(GO:0071818) |
| 0.1 | 1.0 | GO:0005880 | nuclear microtubule(GO:0005880) |
| 0.0 | 0.9 | GO:0005669 | transcription factor TFIID complex(GO:0005669) |
| 0.2 | 0.8 | GO:0016461 | unconventional myosin complex(GO:0016461) |
| 0.0 | 0.8 | GO:0031201 | SNARE complex(GO:0031201) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 14.6 | GO:0000977 | RNA polymerase II regulatory region sequence-specific DNA binding(GO:0000977) RNA polymerase II regulatory region DNA binding(GO:0001012) |
| 0.2 | 3.2 | GO:0008889 | glycerophosphodiester phosphodiesterase activity(GO:0008889) |
| 0.0 | 3.2 | GO:0046910 | pectinesterase inhibitor activity(GO:0046910) |
| 0.6 | 2.9 | GO:0050113 | inositol oxygenase activity(GO:0050113) |
| 0.3 | 2.8 | GO:0033743 | peptide-methionine (R)-S-oxide reductase activity(GO:0033743) |
| 0.1 | 2.8 | GO:0005372 | water transmembrane transporter activity(GO:0005372) water channel activity(GO:0015250) |
| 0.1 | 2.8 | GO:0000156 | phosphorelay response regulator activity(GO:0000156) |
| 0.2 | 2.5 | GO:0015145 | monosaccharide transmembrane transporter activity(GO:0015145) |
| 0.2 | 2.4 | GO:0004332 | fructose-bisphosphate aldolase activity(GO:0004332) |
| 0.1 | 2.3 | GO:0010333 | terpene synthase activity(GO:0010333) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 1.0 | PID E2F PATHWAY | E2F transcription factor network |
| 0.2 | 0.8 | PID HIF1A PATHWAY | Hypoxic and oxygen homeostasis regulation of HIF-1-alpha |
| 0.2 | 0.7 | SA CASPASE CASCADE | Apoptosis is mediated by caspases, cysteine proteases arranged in a proteolytic cascade. |
| 0.1 | 0.7 | NABA MATRISOME ASSOCIATED | Ensemble of genes encoding ECM-associated proteins including ECM-affilaited proteins, ECM regulators and secreted factors |
| 0.2 | 0.6 | PID AURORA A PATHWAY | Aurora A signaling |
| 0.1 | 0.4 | PID IL12 2PATHWAY | IL12-mediated signaling events |
| 0.1 | 0.4 | PID TCPTP PATHWAY | Signaling events mediated by TCPTP |
| 0.1 | 0.4 | PID AP1 PATHWAY | AP-1 transcription factor network |
| 0.1 | 0.4 | PID MTOR 4PATHWAY | mTOR signaling pathway |
| 0.1 | 0.2 | PID ERA GENOMIC PATHWAY | Validated nuclear estrogen receptor alpha network |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 1.0 | REACTOME G0 AND EARLY G1 | Genes involved in G0 and Early G1 |
| 0.1 | 1.0 | REACTOME CHEMOKINE RECEPTORS BIND CHEMOKINES | Genes involved in Chemokine receptors bind chemokines |
| 0.3 | 0.9 | REACTOME FORMATION OF TUBULIN FOLDING INTERMEDIATES BY CCT TRIC | Genes involved in Formation of tubulin folding intermediates by CCT/TriC |
| 0.3 | 0.8 | REACTOME REGULATION OF HYPOXIA INDUCIBLE FACTOR HIF BY OXYGEN | Genes involved in Regulation of Hypoxia-inducible Factor (HIF) by Oxygen |
| 0.2 | 0.7 | REACTOME APOPTOTIC EXECUTION PHASE | Genes involved in Apoptotic execution phase |
| 0.1 | 0.5 | REACTOME METABOLISM OF AMINO ACIDS AND DERIVATIVES | Genes involved in Metabolism of amino acids and derivatives |
| 0.1 | 0.5 | REACTOME TRANSCRIPTIONAL REGULATION OF WHITE ADIPOCYTE DIFFERENTIATION | Genes involved in Transcriptional Regulation of White Adipocyte Differentiation |
| 0.1 | 0.4 | REACTOME AMINO ACID SYNTHESIS AND INTERCONVERSION TRANSAMINATION | Genes involved in Amino acid synthesis and interconversion (transamination) |
| 0.1 | 0.4 | REACTOME VEGF LIGAND RECEPTOR INTERACTIONS | Genes involved in VEGF ligand-receptor interactions |
| 0.1 | 0.4 | REACTOME MHC CLASS II ANTIGEN PRESENTATION | Genes involved in MHC class II antigen presentation |