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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT2G28810
Z-value: 0.97
Transcription factors associated with AT2G28810
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT2G28810
|
AT2G28810 | Dof-type zinc finger DNA-binding family protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| AT2G28810 | arTal_v1_Chr2_+_12363426_12363456 | 0.20 | 4.8e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr2_+_538250_538250 Show fit | 2.14 |
AT2G02120.1
|
Scorpion toxin-like knottin superfamily protein |
|
| arTal_v1_Chr5_+_21240717_21240717 Show fit | 2.06 |
AT5G52310.1
|
low-temperature-responsive protein 78 (LTI78) / desiccation-responsive protein 29A (RD29A) |
|
| arTal_v1_Chr2_-_6493512_6493512 Show fit | 1.77 |
AT2G15020.1
|
hypothetical protein |
|
| arTal_v1_Chr5_+_20151163_20151163 Show fit | 1.58 |
AT5G49640.1
|
hypothetical protein |
|
| arTal_v1_Chr5_-_17199793_17199910 Show fit | 1.58 |
AT5G42900.1
AT5G42900.3 AT5G42900.2 |
cold regulated protein 27 |
|
| arTal_v1_Chr2_+_9126263_9126263 Show fit | 1.47 |
AT2G21320.1
|
B-box zinc finger family protein |
|
| arTal_v1_Chr3_-_489467_489467 Show fit | 1.47 |
AT3G02380.1
|
CONSTANS-like 2 |
|
| arTal_v1_Chr2_-_19370478_19370478 Show fit | 1.40 |
AT2G47180.1
|
galactinol synthase 1 |
|
| arTal_v1_Chr3_+_18940643_18940643 Show fit | 1.38 |
AT3G50970.1
|
dehydrin family protein |
|
| arTal_v1_Chr1_-_22280593_22280593 Show fit | 1.37 |
AT1G60470.1
|
galactinol synthase 4 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT2G28810
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 5.9 | GO:0009909 | regulation of flower development(GO:0009909) |
| 0.4 | 5.1 | GO:0010100 | negative regulation of photomorphogenesis(GO:0010100) |
| 0.1 | 4.5 | GO:0045036 | protein targeting to chloroplast(GO:0045036) establishment of protein localization to chloroplast(GO:0072596) |
| 0.7 | 4.2 | GO:0055129 | L-proline biosynthetic process(GO:0055129) |
| 0.1 | 4.2 | GO:0048506 | regulation of timing of meristematic phase transition(GO:0048506) regulation of timing of transition from vegetative to reproductive phase(GO:0048510) |
| 0.4 | 4.1 | GO:0009608 | response to symbiont(GO:0009608) |
| 0.2 | 3.7 | GO:0050779 | RNA destabilization(GO:0050779) mRNA destabilization(GO:0061157) |
| 0.0 | 3.6 | GO:0006412 | translation(GO:0006412) |
| 0.1 | 3.5 | GO:2000028 | regulation of photoperiodism, flowering(GO:2000028) |
| 0.2 | 3.4 | GO:0006879 | cellular iron ion homeostasis(GO:0006879) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 38.4 | GO:0005829 | cytosol(GO:0005829) |
| 0.0 | 20.0 | GO:0009532 | plastid stroma(GO:0009532) |
| 0.0 | 16.6 | GO:0009579 | thylakoid(GO:0009579) |
| 0.1 | 10.0 | GO:0000790 | nuclear chromatin(GO:0000790) |
| 0.1 | 6.7 | GO:0009707 | chloroplast outer membrane(GO:0009707) |
| 0.0 | 5.8 | GO:0005730 | nucleolus(GO:0005730) |
| 0.1 | 5.2 | GO:0031969 | chloroplast membrane(GO:0031969) |
| 0.0 | 4.2 | GO:0043656 | host(GO:0018995) host cell part(GO:0033643) host intracellular part(GO:0033646) host intracellular organelle(GO:0033647) host intracellular membrane-bounded organelle(GO:0033648) host cell nucleus(GO:0042025) intracellular region of host(GO:0043656) host cell(GO:0043657) other organism(GO:0044215) other organism cell(GO:0044216) other organism part(GO:0044217) |
| 0.0 | 4.1 | GO:0080008 | Cul4-RING E3 ubiquitin ligase complex(GO:0080008) |
| 0.0 | 3.8 | GO:0005802 | trans-Golgi network(GO:0005802) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 36.0 | GO:0003700 | nucleic acid binding transcription factor activity(GO:0001071) transcription factor activity, sequence-specific DNA binding(GO:0003700) |
| 0.1 | 11.2 | GO:0000978 | RNA polymerase II core promoter proximal region sequence-specific DNA binding(GO:0000978) |
| 0.1 | 6.0 | GO:0003724 | RNA helicase activity(GO:0003724) |
| 0.0 | 5.3 | GO:0003779 | actin binding(GO:0003779) |
| 0.1 | 5.2 | GO:0042393 | histone binding(GO:0042393) |
| 0.0 | 5.2 | GO:0043531 | ADP binding(GO:0043531) |
| 0.0 | 4.8 | GO:0016887 | ATPase activity(GO:0016887) |
| 1.0 | 4.2 | GO:0004349 | glutamate 5-kinase activity(GO:0004349) glutamate-5-semialdehyde dehydrogenase activity(GO:0004350) |
| 0.1 | 3.7 | GO:0102483 | scopolin beta-glucosidase activity(GO:0102483) |
| 0.0 | 3.7 | GO:0051082 | unfolded protein binding(GO:0051082) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 1.2 | PID CIRCADIAN PATHWAY | Circadian rhythm pathway |
| 0.4 | 1.1 | SIG PIP3 SIGNALING IN CARDIAC MYOCTES | Genes related to PIP3 signaling in cardiac myocytes |
| 0.3 | 0.9 | PID HNF3B PATHWAY | FOXA2 and FOXA3 transcription factor networks |
| 0.1 | 0.9 | PID AP1 PATHWAY | AP-1 transcription factor network |
| 0.1 | 0.9 | PID HIF1 TFPATHWAY | HIF-1-alpha transcription factor network |
| 0.1 | 0.6 | PID PLK1 PATHWAY | PLK1 signaling events |
| 0.1 | 0.5 | PID IL4 2PATHWAY | IL4-mediated signaling events |
| 0.1 | 0.5 | PID SMAD2 3NUCLEAR PATHWAY | Regulation of nuclear SMAD2/3 signaling |
| 0.1 | 0.5 | PID TRKR PATHWAY | Neurotrophic factor-mediated Trk receptor signaling |
| 0.1 | 0.4 | PID S1P S1P1 PATHWAY | S1P1 pathway |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.9 | 2.6 | REACTOME GABA SYNTHESIS RELEASE REUPTAKE AND DEGRADATION | Genes involved in GABA synthesis, release, reuptake and degradation |
| 0.4 | 1.7 | REACTOME RECRUITMENT OF MITOTIC CENTROSOME PROTEINS AND COMPLEXES | Genes involved in Recruitment of mitotic centrosome proteins and complexes |
| 0.1 | 1.2 | REACTOME NONSENSE MEDIATED DECAY ENHANCED BY THE EXON JUNCTION COMPLEX | Genes involved in Nonsense Mediated Decay Enhanced by the Exon Junction Complex |
| 0.4 | 1.1 | REACTOME ABACAVIR TRANSPORT AND METABOLISM | Genes involved in Abacavir transport and metabolism |
| 0.2 | 1.0 | REACTOME SYNTHESIS OF BILE ACIDS AND BILE SALTS VIA 7ALPHA HYDROXYCHOLESTEROL | Genes involved in Synthesis of bile acids and bile salts via 7alpha-hydroxycholesterol |
| 0.2 | 1.0 | REACTOME BMAL1 CLOCK NPAS2 ACTIVATES CIRCADIAN EXPRESSION | Genes involved in BMAL1:CLOCK/NPAS2 Activates Circadian Expression |
| 0.1 | 0.8 | REACTOME FACTORS INVOLVED IN MEGAKARYOCYTE DEVELOPMENT AND PLATELET PRODUCTION | Genes involved in Factors involved in megakaryocyte development and platelet production |
| 0.2 | 0.7 | REACTOME NRAGE SIGNALS DEATH THROUGH JNK | Genes involved in NRAGE signals death through JNK |
| 0.2 | 0.7 | REACTOME INWARDLY RECTIFYING K CHANNELS | Genes involved in Inwardly rectifying K+ channels |
| 0.1 | 0.7 | REACTOME INTERFERON SIGNALING | Genes involved in Interferon Signaling |