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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT5G62940
Z-value: 0.73
Transcription factors associated with AT5G62940
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT5G62940
|
AT5G62940 | Dof-type zinc finger DNA-binding family protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| HCA2 | arTal_v1_Chr5_-_25258704_25258704 | -0.14 | 6.3e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr1_+_9829261_9829261 Show fit | 1.84 |
AT1G28135.1
|
hypothetical protein |
|
| arTal_v1_Chr5_-_15135169_15135169 Show fit | 1.64 |
AT5G37990.1
|
S-adenosyl-L-methionine-dependent methyltransferase superfamily protein |
|
| arTal_v1_Chr1_-_27569823_27569823 Show fit | 1.41 |
AT1G73330.1
|
drought-repressed 4 |
|
| arTal_v1_Chr4_-_12337599_12337599 Show fit | 1.29 |
AT4G23680.1
|
Polyketide cyclase/dehydrase and lipid transport superfamily protein |
|
| arTal_v1_Chr2_-_7919345_7919345 Show fit | 1.24 |
AT2G18193.1
|
P-loop containing nucleoside triphosphate hydrolases superfamily protein |
|
| arTal_v1_Chr5_+_9200271_9200271 Show fit | 1.23 |
AT5G26260.1
|
TRAF-like family protein |
|
| arTal_v1_Chr1_+_27670626_27670626 Show fit | 1.11 |
AT1G73600.1
|
S-adenosyl-L-methionine-dependent methyltransferases superfamily protein |
|
| arTal_v1_Chr5_-_15167859_15167864 Show fit | 1.10 |
AT5G38020.2
AT5G38020.1 |
S-adenosyl-L-methionine-dependent methyltransferases superfamily protein |
|
| arTal_v1_Chr5_+_19434758_19434758 Show fit | 1.09 |
AT5G47990.1
|
cytochrome P450, family 705, subfamily A, polypeptide 5 |
|
| arTal_v1_Chr2_-_6960216_6960216 Show fit | 1.08 |
AT2G16005.1
|
MD-2-related lipid recognition domain-containing protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT5G62940
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 4.7 | GO:0015976 | carbon utilization(GO:0015976) |
| 0.0 | 3.9 | GO:0010410 | hemicellulose metabolic process(GO:0010410) |
| 0.0 | 3.3 | GO:0010200 | response to chitin(GO:0010200) |
| 0.1 | 3.1 | GO:0030091 | protein repair(GO:0030091) |
| 0.8 | 3.0 | GO:0080003 | thalianol metabolic process(GO:0080003) |
| 0.1 | 2.8 | GO:0016126 | sterol biosynthetic process(GO:0016126) |
| 0.0 | 2.6 | GO:0010224 | response to UV-B(GO:0010224) |
| 0.1 | 1.8 | GO:0009970 | cellular response to sulfate starvation(GO:0009970) |
| 0.1 | 1.8 | GO:0042343 | indole glucosinolate metabolic process(GO:0042343) |
| 0.0 | 1.8 | GO:0045292 | mRNA cis splicing, via spliceosome(GO:0045292) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 5.8 | GO:0010319 | stromule(GO:0010319) |
| 0.0 | 5.0 | GO:0048046 | apoplast(GO:0048046) |
| 0.1 | 3.2 | GO:0000323 | lytic vacuole(GO:0000323) |
| 0.0 | 2.9 | GO:0031225 | anchored component of membrane(GO:0031225) |
| 0.0 | 2.3 | GO:0005681 | spliceosomal complex(GO:0005681) |
| 0.0 | 1.7 | GO:0099503 | secretory vesicle(GO:0099503) |
| 0.1 | 1.1 | GO:0016602 | CCAAT-binding factor complex(GO:0016602) |
| 0.2 | 0.9 | GO:0034663 | endoplasmic reticulum chaperone complex(GO:0034663) |
| 0.2 | 0.9 | GO:0035061 | interchromatin granule(GO:0035061) |
| 0.0 | 0.9 | GO:0031307 | intrinsic component of mitochondrial outer membrane(GO:0031306) integral component of mitochondrial outer membrane(GO:0031307) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 4.2 | GO:0004089 | carbonate dehydratase activity(GO:0004089) |
| 0.0 | 3.5 | GO:0004197 | cysteine-type endopeptidase activity(GO:0004197) |
| 0.4 | 3.3 | GO:0004506 | squalene monooxygenase activity(GO:0004506) |
| 0.0 | 2.9 | GO:0004601 | peroxidase activity(GO:0004601) |
| 0.2 | 2.7 | GO:0033743 | peptide-methionine (R)-S-oxide reductase activity(GO:0033743) |
| 0.1 | 2.6 | GO:0016682 | oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor(GO:0016682) |
| 0.0 | 2.5 | GO:0004364 | glutathione transferase activity(GO:0004364) |
| 0.3 | 2.4 | GO:0033946 | xyloglucan-specific endo-beta-1,4-glucanase activity(GO:0033946) |
| 0.1 | 2.2 | GO:0080044 | quercetin 7-O-glucosyltransferase activity(GO:0080044) |
| 0.1 | 2.1 | GO:0004565 | beta-galactosidase activity(GO:0004565) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 3.6 | PID CMYB PATHWAY | C-MYB transcription factor network |
| 0.2 | 0.7 | PID VEGF VEGFR PATHWAY | VEGF and VEGFR signaling network |
| 0.2 | 0.5 | PID IL12 2PATHWAY | IL12-mediated signaling events |
| 0.1 | 0.5 | NABA ECM GLYCOPROTEINS | Genes encoding structural ECM glycoproteins |
| 0.2 | 0.4 | PID NFAT TFPATHWAY | Calcineurin-regulated NFAT-dependent transcription in lymphocytes |
| 0.1 | 0.4 | NABA MATRISOME ASSOCIATED | Ensemble of genes encoding ECM-associated proteins including ECM-affilaited proteins, ECM regulators and secreted factors |
| 0.0 | 0.4 | PID E2F PATHWAY | E2F transcription factor network |
| 0.1 | 0.2 | PID REG GR PATHWAY | Glucocorticoid receptor regulatory network |
| 0.1 | 0.2 | SA CASPASE CASCADE | Apoptosis is mediated by caspases, cysteine proteases arranged in a proteolytic cascade. |
| 0.1 | 0.2 | PID TAP63 PATHWAY | Validated transcriptional targets of TAp63 isoforms |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.6 | 3.9 | REACTOME REVERSIBLE HYDRATION OF CARBON DIOXIDE | Genes involved in Reversible Hydration of Carbon Dioxide |
| 0.2 | 1.0 | REACTOME RECYCLING OF BILE ACIDS AND SALTS | Genes involved in Recycling of bile acids and salts |
| 0.1 | 1.0 | REACTOME PPARA ACTIVATES GENE EXPRESSION | Genes involved in PPARA Activates Gene Expression |
| 0.2 | 0.7 | REACTOME SEMAPHORIN INTERACTIONS | Genes involved in Semaphorin interactions |
| 0.1 | 0.6 | REACTOME G0 AND EARLY G1 | Genes involved in G0 and Early G1 |
| 0.0 | 0.6 | REACTOME ABC FAMILY PROTEINS MEDIATED TRANSPORT | Genes involved in ABC-family proteins mediated transport |
| 0.1 | 0.4 | REACTOME APOPTOTIC EXECUTION PHASE | Genes involved in Apoptotic execution phase |
| 0.1 | 0.3 | REACTOME PKB MEDIATED EVENTS | Genes involved in PKB-mediated events |
| 0.1 | 0.3 | REACTOME MHC CLASS II ANTIGEN PRESENTATION | Genes involved in MHC class II antigen presentation |
| 0.0 | 0.3 | REACTOME ANTIGEN PROCESSING UBIQUITINATION PROTEASOME DEGRADATION | Genes involved in Antigen processing: Ubiquitination & Proteasome degradation |