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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT2G38340
Z-value: 1.05
Transcription factors associated with AT2G38340
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT2G38340
|
AT2G38340 | Integrase-type DNA-binding superfamily protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| DREB19 | arTal_v1_Chr2_-_16068615_16068615 | 0.34 | 2.4e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr2_-_17712290_17712330 Show fit | 3.20 |
AT2G42540.2
AT2G42540.4 AT2G42540.1 AT2G42540.3 |
cold-regulated 15a |
|
| arTal_v1_Chr5_+_21240717_21240717 Show fit | 2.08 |
AT5G52310.1
|
low-temperature-responsive protein 78 (LTI78) / desiccation-responsive protein 29A (RD29A) |
|
| arTal_v1_Chr1_+_28975255_28975255 Show fit | 1.92 |
AT1G77120.1
|
alcohol dehydrogenase 1 |
|
| arTal_v1_Chr1_+_3019639_3019639 Show fit | 1.82 |
AT1G09350.1
|
galactinol synthase 3 |
|
| arTal_v1_Chr1_+_3020221_3020221 Show fit | 1.71 |
AT1G09350.2
|
galactinol synthase 3 |
|
| arTal_v1_Chr4_-_7401951_7401951 Show fit | 1.68 |
AT4G12470.1
|
azelaic acid induced 1 |
|
| arTal_v1_Chr2_-_19370478_19370478 Show fit | 1.38 |
AT2G47180.1
|
galactinol synthase 1 |
|
| arTal_v1_Chr1_-_22280593_22280593 Show fit | 1.34 |
AT1G60470.1
|
galactinol synthase 4 |
|
| arTal_v1_Chr3_-_2699257_2699257 Show fit | 1.33 |
AT3G08860.2
|
PYRIMIDINE 4 |
|
| arTal_v1_Chr3_-_2699420_2699420 Show fit | 1.30 |
AT3G08860.1
|
PYRIMIDINE 4 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT2G38340
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 6.0 | GO:0006012 | galactose metabolic process(GO:0006012) |
| 0.8 | 4.6 | GO:0009413 | response to flooding(GO:0009413) |
| 0.4 | 3.7 | GO:0009819 | drought recovery(GO:0009819) |
| 0.0 | 3.6 | GO:0006412 | translation(GO:0006412) |
| 0.1 | 3.4 | GO:0000413 | protein peptidyl-prolyl isomerization(GO:0000413) |
| 0.1 | 2.9 | GO:0045036 | protein targeting to chloroplast(GO:0045036) establishment of protein localization to chloroplast(GO:0072596) |
| 0.0 | 2.5 | GO:0042254 | ribosome biogenesis(GO:0042254) |
| 0.2 | 2.1 | GO:0009608 | response to symbiont(GO:0009608) |
| 0.1 | 1.9 | GO:0045338 | farnesyl diphosphate metabolic process(GO:0045338) |
| 0.0 | 1.9 | GO:0043562 | cellular response to nitrogen levels(GO:0043562) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 5.3 | GO:0005730 | nucleolus(GO:0005730) |
| 0.1 | 4.1 | GO:0009707 | chloroplast outer membrane(GO:0009707) |
| 0.0 | 3.0 | GO:0031977 | thylakoid lumen(GO:0031977) |
| 0.0 | 2.8 | GO:0000790 | nuclear chromatin(GO:0000790) |
| 0.0 | 2.7 | GO:0016604 | nuclear body(GO:0016604) |
| 0.0 | 2.4 | GO:0005797 | Golgi medial cisterna(GO:0005797) |
| 0.1 | 1.8 | GO:0009508 | plastid chromosome(GO:0009508) |
| 0.1 | 1.5 | GO:0010494 | cytoplasmic stress granule(GO:0010494) |
| 0.0 | 1.4 | GO:0071013 | catalytic step 2 spliceosome(GO:0071013) |
| 0.3 | 1.2 | GO:0005967 | mitochondrial pyruvate dehydrogenase complex(GO:0005967) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.7 | 6.4 | GO:0047216 | inositol 3-alpha-galactosyltransferase activity(GO:0047216) |
| 0.1 | 4.1 | GO:0102483 | scopolin beta-glucosidase activity(GO:0102483) |
| 0.0 | 3.6 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 0.1 | 3.3 | GO:0048029 | monosaccharide binding(GO:0048029) |
| 0.0 | 3.2 | GO:0043621 | protein self-association(GO:0043621) |
| 0.1 | 2.5 | GO:0051753 | beta-1,4-mannosyltransferase activity(GO:0019187) mannan synthase activity(GO:0051753) |
| 0.1 | 2.4 | GO:0016157 | sucrose synthase activity(GO:0016157) |
| 0.2 | 2.3 | GO:0008453 | alanine-glyoxylate transaminase activity(GO:0008453) |
| 0.0 | 2.2 | GO:0003724 | RNA helicase activity(GO:0003724) |
| 0.0 | 2.1 | 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 |
|---|---|---|---|
| 0.1 | 0.7 | PID AP1 PATHWAY | AP-1 transcription factor network |
| 0.1 | 0.5 | ST DIFFERENTIATION PATHWAY IN PC12 CELLS | Differentiation Pathway in PC12 Cells; this is a specific case of PAC1 Receptor Pathway. |
| 0.1 | 0.5 | PID HIF1 TFPATHWAY | HIF-1-alpha transcription factor network |
| 0.1 | 0.3 | PID NFAT TFPATHWAY | Calcineurin-regulated NFAT-dependent transcription in lymphocytes |
| 0.1 | 0.2 | ST G ALPHA I PATHWAY | G alpha i Pathway |
| 0.0 | 0.1 | PID KIT PATHWAY | Signaling events mediated by Stem cell factor receptor (c-Kit) |
| 0.0 | 0.1 | PID MYC ACTIV PATHWAY | Validated targets of C-MYC transcriptional activation |
| 0.0 | 0.1 | PID ATR PATHWAY | ATR signaling pathway |
| 0.0 | 0.1 | PID RAC1 PATHWAY | RAC1 signaling pathway |
| 0.0 | 0.0 | PID UPA UPAR PATHWAY | Urokinase-type plasminogen activator (uPA) and uPAR-mediated signaling |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 1.7 | REACTOME LOSS OF NLP FROM MITOTIC CENTROSOMES | Genes involved in Loss of Nlp from mitotic centrosomes |
| 0.1 | 0.7 | REACTOME L1CAM INTERACTIONS | Genes involved in L1CAM interactions |
| 0.1 | 0.7 | REACTOME LIPID DIGESTION MOBILIZATION AND TRANSPORT | Genes involved in Lipid digestion, mobilization, and transport |
| 0.1 | 0.6 | REACTOME METABOLISM OF VITAMINS AND COFACTORS | Genes involved in Metabolism of vitamins and cofactors |
| 0.1 | 0.6 | REACTOME RNA POL II TRANSCRIPTION PRE INITIATION AND PROMOTER OPENING | Genes involved in RNA Polymerase II Transcription Pre-Initiation And Promoter Opening |
| 0.0 | 0.6 | REACTOME INFLUENZA LIFE CYCLE | Genes involved in Influenza Life Cycle |
| 0.2 | 0.5 | REACTOME ABACAVIR TRANSPORT AND METABOLISM | Genes involved in Abacavir transport and metabolism |
| 0.2 | 0.5 | REACTOME DOWNSTREAM SIGNALING OF ACTIVATED FGFR | Genes involved in Downstream signaling of activated FGFR |
| 0.1 | 0.5 | REACTOME INTERFERON SIGNALING | Genes involved in Interferon Signaling |
| 0.1 | 0.3 | REACTOME MITOTIC PROMETAPHASE | Genes involved in Mitotic Prometaphase |