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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT4G00250
Z-value: 1.29
Transcription factors associated with AT4G00250
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT4G00250
|
AT4G00250 | DNA-binding storekeeper protein-related transcriptional regulator |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| AT4G00250 | arTal_v1_Chr4_-_113982_113982 | -0.41 | 1.4e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr1_+_9829261_9829261 Show fit | 1.76 |
AT1G28135.1
|
hypothetical protein |
|
| arTal_v1_Chr4_+_18413775_18413775 Show fit | 1.02 |
AT4G39675.1
|
hypothetical protein |
|
| arTal_v1_Chr1_+_18546086_18546165 Show fit | 0.97 |
AT1G50050.2
AT1G50050.1 |
CAP (Cysteine-rich secretory proteins, Antigen 5, and Pathogenesis-related 1 protein) superfamily protein |
|
| arTal_v1_Chr4_-_2992618_2992618 Show fit | 0.95 |
AT4G05631.1
|
hypothetical protein |
|
| arTal_v1_Chr3_+_17920795_17920795 Show fit | 0.85 |
AT3G48390.1
|
MA3 domain-containing protein |
|
| arTal_v1_Chr5_-_20204595_20204595 Show fit | 0.84 |
AT5G49730.1
AT5G49730.2 |
ferric reduction oxidase 6 |
|
| arTal_v1_Chr3_+_15983199_15983199 Show fit | 0.81 |
AT3G44300.1
|
nitrilase 2 |
|
| arTal_v1_Chr4_-_13729002_13729002 Show fit | 0.80 |
AT4G27450.1
|
aluminum induced protein with YGL and LRDR motifs |
|
| arTal_v1_Chr5_-_22896734_22896734 Show fit | 0.73 |
AT5G56550.1
|
oxidative stress 3 |
|
| arTal_v1_Chr2_+_16216752_16216752 Show fit | 0.73 |
AT2G38800.1
|
Plant calmodulin-binding protein-like protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT4G00250
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 3.4 | GO:0070413 | trehalose metabolism in response to stress(GO:0070413) |
| 0.2 | 3.1 | GO:1901401 | regulation of tetrapyrrole metabolic process(GO:1901401) |
| 0.1 | 2.2 | GO:0043562 | cellular response to nitrogen levels(GO:0043562) |
| 0.2 | 2.1 | GO:0051513 | regulation of monopolar cell growth(GO:0051513) |
| 0.1 | 2.0 | GO:0000413 | protein peptidyl-prolyl isomerization(GO:0000413) |
| 0.0 | 2.0 | GO:0015995 | chlorophyll biosynthetic process(GO:0015995) |
| 0.1 | 1.9 | GO:0000373 | Group II intron splicing(GO:0000373) |
| 0.1 | 1.8 | GO:0045037 | protein import into chloroplast stroma(GO:0045037) |
| 0.0 | 1.8 | GO:0031146 | SCF-dependent proteasomal ubiquitin-dependent protein catabolic process(GO:0031146) |
| 0.1 | 1.6 | GO:1901259 | chloroplast rRNA processing(GO:1901259) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 47.2 | GO:0009536 | plastid(GO:0009536) |
| 0.0 | 8.5 | GO:0031976 | plastid thylakoid(GO:0031976) |
| 0.0 | 6.7 | GO:0009532 | plastid stroma(GO:0009532) |
| 0.1 | 4.1 | GO:0031977 | thylakoid lumen(GO:0031977) |
| 0.0 | 3.2 | GO:0019005 | SCF ubiquitin ligase complex(GO:0019005) |
| 0.0 | 2.9 | GO:0016604 | nuclear body(GO:0016604) |
| 0.0 | 2.7 | GO:0009707 | chloroplast outer membrane(GO:0009707) |
| 0.0 | 2.6 | GO:0031969 | chloroplast membrane(GO:0031969) |
| 0.0 | 2.6 | GO:0080008 | Cul4-RING E3 ubiquitin ligase complex(GO:0080008) |
| 0.0 | 2.2 | GO:0099503 | secretory vesicle(GO:0099503) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 5.0 | GO:0043531 | ADP binding(GO:0043531) |
| 0.1 | 4.7 | GO:0050135 | NAD(P)+ nucleosidase activity(GO:0050135) |
| 0.0 | 4.7 | GO:0004842 | ubiquitin-protein transferase activity(GO:0004842) |
| 0.0 | 3.7 | GO:0000989 | transcription factor activity, transcription factor binding(GO:0000989) transcription cofactor activity(GO:0003712) |
| 0.2 | 3.4 | GO:0003825 | alpha,alpha-trehalose-phosphate synthase (UDP-forming) activity(GO:0003825) |
| 0.0 | 3.3 | GO:0051015 | actin filament binding(GO:0051015) |
| 0.1 | 2.6 | GO:0004176 | ATP-dependent peptidase activity(GO:0004176) |
| 0.0 | 2.6 | GO:0046982 | protein heterodimerization activity(GO:0046982) |
| 0.0 | 2.6 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 0.0 | 2.3 | GO:0003755 | peptidyl-prolyl cis-trans isomerase activity(GO:0003755) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 1.4 | PID CIRCADIAN PATHWAY | Circadian rhythm pathway |
| 0.1 | 0.7 | PID HIF1 TFPATHWAY | HIF-1-alpha transcription factor network |
| 0.1 | 0.6 | PID S1P META PATHWAY | Sphingosine 1-phosphate (S1P) pathway |
| 0.1 | 0.4 | PID MYC REPRESS PATHWAY | Validated targets of C-MYC transcriptional repression |
| 0.1 | 0.3 | PID REG GR PATHWAY | Glucocorticoid receptor regulatory network |
| 0.1 | 0.2 | PID ATF2 PATHWAY | ATF-2 transcription factor network |
| 0.1 | 0.2 | PID LYMPH ANGIOGENESIS PATHWAY | VEGFR3 signaling in lymphatic endothelium |
| 0.0 | 0.2 | PID P53 DOWNSTREAM PATHWAY | Direct p53 effectors |
| 0.1 | 0.1 | PID SMAD2 3NUCLEAR PATHWAY | Regulation of nuclear SMAD2/3 signaling |
| 0.0 | 0.1 | PID AP1 PATHWAY | AP-1 transcription factor network |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 1.2 | REACTOME BMAL1 CLOCK NPAS2 ACTIVATES CIRCADIAN EXPRESSION | Genes involved in BMAL1:CLOCK/NPAS2 Activates Circadian Expression |
| 0.0 | 1.0 | REACTOME NONSENSE MEDIATED DECAY ENHANCED BY THE EXON JUNCTION COMPLEX | Genes involved in Nonsense Mediated Decay Enhanced by the Exon Junction Complex |
| 0.1 | 0.7 | REACTOME METABOLISM OF AMINO ACIDS AND DERIVATIVES | Genes involved in Metabolism of amino acids and derivatives |
| 0.0 | 0.7 | REACTOME TRANSMEMBRANE TRANSPORT OF SMALL MOLECULES | Genes involved in Transmembrane transport of small molecules |
| 0.1 | 0.5 | REACTOME PYRUVATE METABOLISM AND CITRIC ACID TCA CYCLE | Genes involved in Pyruvate metabolism and Citric Acid (TCA) cycle |
| 0.1 | 0.4 | REACTOME MRNA DECAY BY 5 TO 3 EXORIBONUCLEASE | Genes involved in mRNA Decay by 5' to 3' Exoribonuclease |
| 0.1 | 0.4 | REACTOME ABACAVIR TRANSPORT AND METABOLISM | Genes involved in Abacavir transport and metabolism |
| 0.1 | 0.4 | REACTOME PURINE METABOLISM | Genes involved in Purine metabolism |
| 0.0 | 0.4 | REACTOME PPARA ACTIVATES GENE EXPRESSION | Genes involved in PPARA Activates Gene Expression |
| 0.0 | 0.4 | REACTOME RNA POL II TRANSCRIPTION PRE INITIATION AND PROMOTER OPENING | Genes involved in RNA Polymerase II Transcription Pre-Initiation And Promoter Opening |