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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT3G12720
Z-value: 2.13
Transcription factors associated with AT3G12720
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT3G12720
|
AT3G12720 | myb domain protein 67 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| MYB67 | arTal_v1_Chr3_-_4044715_4044715 | 0.79 | 7.1e-04 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr1_+_28975255_28975255 Show fit | 4.23 |
AT1G77120.1
|
alcohol dehydrogenase 1 |
|
| arTal_v1_Chr2_-_17710433_17710433 Show fit | 3.94 |
AT2G42530.1
|
cold regulated 15b |
|
| arTal_v1_Chr3_+_4104463_4104463 Show fit | 3.44 |
AT3G12900.1
|
2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily protein |
|
| arTal_v1_Chr4_+_15451988_15451988 Show fit | 3.41 |
AT4G31940.1
|
cytochrome P450, family 82, subfamily C, polypeptide 4 |
|
| arTal_v1_Chr1_+_3019639_3019639 Show fit | 3.30 |
AT1G09350.1
|
galactinol synthase 3 |
|
| arTal_v1_Chr5_-_14753088_14753088 Show fit | 3.23 |
AT5G37260.1
|
Homeodomain-like superfamily protein |
|
| arTal_v1_Chr4_+_10707344_10707378 Show fit | 3.12 |
AT4G19690.2
AT4G19690.1 |
iron-regulated transporter 1 |
|
| arTal_v1_Chr1_+_3020221_3020221 Show fit | 3.05 |
AT1G09350.2
|
galactinol synthase 3 |
|
| arTal_v1_Chr1_+_209208_209208 Show fit | 3.00 |
AT1G01580.1
|
ferric reduction oxidase 2 |
|
| arTal_v1_Chr1_+_208995_208995 Show fit | 2.99 |
AT1G01580.2
|
ferric reduction oxidase 2 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT3G12720
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 17.7 | GO:0006412 | translation(GO:0006412) |
| 0.4 | 14.4 | GO:0055072 | iron ion homeostasis(GO:0055072) |
| 0.2 | 11.0 | GO:0002181 | cytoplasmic translation(GO:0002181) |
| 0.1 | 9.6 | GO:0042273 | ribosomal large subunit biogenesis(GO:0042273) |
| 1.6 | 9.5 | GO:0009413 | response to flooding(GO:0009413) |
| 0.2 | 9.3 | GO:0045036 | protein targeting to chloroplast(GO:0045036) establishment of protein localization to chloroplast(GO:0072596) |
| 0.3 | 8.3 | GO:0006012 | galactose metabolic process(GO:0006012) |
| 0.2 | 7.7 | GO:0040034 | regulation of development, heterochronic(GO:0040034) |
| 1.7 | 6.7 | GO:0015675 | nickel cation transport(GO:0015675) |
| 0.2 | 6.4 | GO:0010143 | cutin biosynthetic process(GO:0010143) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 96.0 | GO:0005829 | cytosol(GO:0005829) |
| 0.1 | 56.1 | GO:0030054 | cell-cell junction(GO:0005911) plasmodesma(GO:0009506) cell junction(GO:0030054) symplast(GO:0055044) |
| 0.0 | 40.2 | GO:0005886 | plasma membrane(GO:0005886) |
| 0.1 | 34.5 | GO:0009570 | chloroplast stroma(GO:0009570) |
| 0.1 | 22.0 | GO:0044434 | chloroplast part(GO:0044434) |
| 0.1 | 19.6 | GO:0022626 | cytosolic ribosome(GO:0022626) |
| 0.1 | 18.6 | GO:0022625 | cytosolic large ribosomal subunit(GO:0022625) |
| 0.1 | 12.6 | GO:0000790 | nuclear chromatin(GO:0000790) |
| 0.1 | 11.8 | GO:0031969 | chloroplast membrane(GO:0031969) |
| 0.1 | 9.1 | GO:0080008 | Cul4-RING E3 ubiquitin ligase complex(GO:0080008) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 47.4 | GO:0044822 | mRNA binding(GO:0003729) poly(A) RNA binding(GO:0044822) |
| 0.1 | 26.1 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 0.2 | 17.7 | GO:0051082 | unfolded protein binding(GO:0051082) |
| 0.0 | 15.5 | GO:0008270 | zinc ion binding(GO:0008270) |
| 0.2 | 13.8 | GO:0003724 | RNA helicase activity(GO:0003724) |
| 0.1 | 9.2 | GO:0043492 | hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances(GO:0016820) ATPase activity, coupled to transmembrane movement of substances(GO:0042626) ATPase activity, coupled to movement of substances(GO:0043492) |
| 0.0 | 8.1 | GO:0004672 | protein kinase activity(GO:0004672) |
| 0.3 | 7.8 | GO:0015562 | efflux transmembrane transporter activity(GO:0015562) |
| 0.8 | 7.6 | GO:0047216 | inositol 3-alpha-galactosyltransferase activity(GO:0047216) |
| 0.1 | 7.1 | GO:0000978 | RNA polymerase II core promoter proximal region sequence-specific DNA binding(GO:0000978) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 2.5 | PID HIF1 TFPATHWAY | HIF-1-alpha transcription factor network |
| 0.6 | 1.9 | SIG PIP3 SIGNALING IN CARDIAC MYOCTES | Genes related to PIP3 signaling in cardiac myocytes |
| 0.2 | 1.7 | PID ATR PATHWAY | ATR signaling pathway |
| 0.4 | 1.3 | ST G ALPHA I PATHWAY | G alpha i Pathway |
| 0.4 | 1.2 | SIG CHEMOTAXIS | Genes related to chemotaxis |
| 0.6 | 1.1 | ST FAS SIGNALING PATHWAY | Fas Signaling Pathway |
| 0.2 | 1.1 | PID MTOR 4PATHWAY | mTOR signaling pathway |
| 0.3 | 1.0 | PID HNF3B PATHWAY | FOXA2 and FOXA3 transcription factor networks |
| 0.1 | 0.9 | PID NOTCH PATHWAY | Notch signaling pathway |
| 0.2 | 0.7 | NABA SECRETED FACTORS | Genes encoding secreted soluble factors |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 2.6 | REACTOME PYRUVATE METABOLISM AND CITRIC ACID TCA CYCLE | Genes involved in Pyruvate metabolism and Citric Acid (TCA) cycle |
| 0.4 | 2.5 | REACTOME LIPID DIGESTION MOBILIZATION AND TRANSPORT | Genes involved in Lipid digestion, mobilization, and transport |
| 0.4 | 2.1 | REACTOME SIGNALING BY RHO GTPASES | Genes involved in Signaling by Rho GTPases |
| 0.6 | 1.8 | REACTOME ABACAVIR TRANSPORT AND METABOLISM | Genes involved in Abacavir transport and metabolism |
| 0.3 | 1.8 | REACTOME UNWINDING OF DNA | Genes involved in Unwinding of DNA |
| 0.2 | 1.8 | REACTOME PPARA ACTIVATES GENE EXPRESSION | Genes involved in PPARA Activates Gene Expression |
| 0.2 | 1.6 | REACTOME METABOLISM OF VITAMINS AND COFACTORS | Genes involved in Metabolism of vitamins and cofactors |
| 0.1 | 1.6 | REACTOME FORMATION OF THE TERNARY COMPLEX AND SUBSEQUENTLY THE 43S COMPLEX | Genes involved in Formation of the ternary complex, and subsequently, the 43S complex |
| 0.3 | 1.4 | REACTOME E2F ENABLED INHIBITION OF PRE REPLICATION COMPLEX FORMATION | Genes involved in E2F-enabled inhibition of pre-replication complex formation |
| 0.4 | 1.2 | REACTOME INTEGRATION OF ENERGY METABOLISM | Genes involved in Integration of energy metabolism |