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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT4G38170
Z-value: 3.65
Transcription factors associated with AT4G38170
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT4G38170
|
AT4G38170 | FAR1-related sequence 9 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| FRS9 | arTal_v1_Chr4_+_17904532_17904532 | 0.58 | 3.1e-02 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr5_-_17199793_17199910 Show fit | 7.73 |
AT5G42900.1
AT5G42900.3 AT5G42900.2 |
cold regulated protein 27 |
|
| arTal_v1_Chr1_+_209208_209208 Show fit | 5.40 |
AT1G01580.1
|
ferric reduction oxidase 2 |
|
| arTal_v1_Chr1_+_208995_208995 Show fit | 5.39 |
AT1G01580.2
|
ferric reduction oxidase 2 |
|
| arTal_v1_Chr1_-_22280593_22280593 Show fit | 4.15 |
AT1G60470.1
|
galactinol synthase 4 |
|
| arTal_v1_Chr2_-_12415661_12415661 Show fit | 4.13 |
AT2G28900.1
|
outer plastid envelope protein 16-1 |
|
| arTal_v1_Chr5_-_7054281_7054281 Show fit | 4.11 |
AT5G20830.3
|
sucrose synthase 1 |
|
| arTal_v1_Chr5_-_7054713_7054713 Show fit | 4.04 |
AT5G20830.1
|
sucrose synthase 1 |
|
| arTal_v1_Chr5_-_7055398_7055398 Show fit | 3.95 |
AT5G20830.2
|
sucrose synthase 1 |
|
| arTal_v1_Chr5_-_22115539_22115539 Show fit | 3.94 |
AT5G54470.1
|
B-box type zinc finger family protein |
|
| arTal_v1_Chr4_-_13001948_13001948 Show fit | 3.74 |
AT4G25433.1
|
peptidoglycan-binding LysM domain-containing protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT4G38170
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 12.7 | GO:0055072 | iron ion homeostasis(GO:0055072) |
| 2.4 | 12.1 | GO:0072708 | response to sorbitol(GO:0072708) |
| 0.2 | 11.0 | GO:0042752 | regulation of circadian rhythm(GO:0042752) |
| 0.5 | 8.3 | GO:0010050 | vegetative phase change(GO:0010050) |
| 0.5 | 7.1 | GO:0048497 | maintenance of organ identity(GO:0048496) maintenance of floral organ identity(GO:0048497) |
| 0.2 | 6.8 | GO:0006623 | protein targeting to vacuole(GO:0006623) protein localization to vacuole(GO:0072665) establishment of protein localization to vacuole(GO:0072666) |
| 0.1 | 6.7 | GO:0031146 | SCF-dependent proteasomal ubiquitin-dependent protein catabolic process(GO:0031146) |
| 0.1 | 6.4 | GO:0018105 | peptidyl-serine phosphorylation(GO:0018105) peptidyl-serine modification(GO:0018209) |
| 0.1 | 5.9 | GO:0045732 | positive regulation of protein catabolic process(GO:0045732) |
| 0.1 | 5.7 | GO:0006414 | translational elongation(GO:0006414) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 48.4 | GO:0005886 | plasma membrane(GO:0005886) |
| 0.0 | 32.1 | GO:0030054 | cell-cell junction(GO:0005911) plasmodesma(GO:0009506) cell junction(GO:0030054) symplast(GO:0055044) |
| 0.0 | 16.4 | GO:0005773 | vacuole(GO:0005773) |
| 0.1 | 9.1 | GO:0005635 | nuclear envelope(GO:0005635) |
| 0.0 | 8.5 | GO:0022626 | cytosolic ribosome(GO:0022626) |
| 0.1 | 8.2 | GO:0022625 | cytosolic large ribosomal subunit(GO:0022625) |
| 0.1 | 7.3 | GO:0000790 | nuclear chromatin(GO:0000790) |
| 0.1 | 5.6 | GO:0019005 | SCF ubiquitin ligase complex(GO:0019005) |
| 0.1 | 5.5 | GO:0005770 | late endosome(GO:0005770) |
| 0.0 | 4.7 | GO:0005730 | nucleolus(GO:0005730) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 15.6 | GO:0001071 | nucleic acid binding transcription factor activity(GO:0001071) transcription factor activity, sequence-specific DNA binding(GO:0003700) |
| 0.9 | 15.1 | GO:0016157 | sucrose synthase activity(GO:0016157) |
| 0.0 | 12.8 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 1.0 | 10.8 | GO:0000293 | ferric-chelate reductase activity(GO:0000293) oxidoreductase activity, oxidizing metal ions, NAD or NADP as acceptor(GO:0016723) |
| 0.1 | 9.1 | GO:0003779 | actin binding(GO:0003779) |
| 0.0 | 8.9 | GO:0042803 | protein homodimerization activity(GO:0042803) |
| 0.1 | 7.7 | GO:0015171 | amino acid transmembrane transporter activity(GO:0015171) |
| 0.0 | 7.7 | GO:0008289 | lipid binding(GO:0008289) |
| 0.1 | 7.2 | GO:0009931 | calcium-dependent protein serine/threonine kinase activity(GO:0009931) calcium-dependent protein kinase activity(GO:0010857) |
| 0.2 | 6.3 | GO:0015385 | sodium:proton antiporter activity(GO:0015385) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 2.4 | ST FAS SIGNALING PATHWAY | Fas Signaling Pathway |
| 0.7 | 2.0 | ST PAC1 RECEPTOR PATHWAY | PAC1 Receptor Pathway |
| 0.1 | 1.6 | PID ERBB1 DOWNSTREAM PATHWAY | ErbB1 downstream signaling |
| 0.3 | 1.0 | PID HIF1A PATHWAY | Hypoxic and oxygen homeostasis regulation of HIF-1-alpha |
| 0.2 | 1.0 | PID HES HEY PATHWAY | Notch-mediated HES/HEY network |
| 0.3 | 0.9 | PID NFAT TFPATHWAY | Calcineurin-regulated NFAT-dependent transcription in lymphocytes |
| 0.1 | 0.9 | PID HIF1 TFPATHWAY | HIF-1-alpha transcription factor network |
| 0.2 | 0.6 | ST WNT BETA CATENIN PATHWAY | Wnt/beta-catenin Pathway |
| 0.2 | 0.5 | PID AVB3 OPN PATHWAY | Osteopontin-mediated events |
| 0.1 | 0.5 | PID KIT PATHWAY | Signaling events mediated by Stem cell factor receptor (c-Kit) |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 3.4 | REACTOME FACTORS INVOLVED IN MEGAKARYOCYTE DEVELOPMENT AND PLATELET PRODUCTION | Genes involved in Factors involved in megakaryocyte development and platelet production |
| 0.3 | 2.0 | REACTOME LIPID DIGESTION MOBILIZATION AND TRANSPORT | Genes involved in Lipid digestion, mobilization, and transport |
| 0.1 | 1.8 | REACTOME ABCA TRANSPORTERS IN LIPID HOMEOSTASIS | Genes involved in ABCA transporters in lipid homeostasis |
| 0.3 | 1.6 | REACTOME SLC MEDIATED TRANSMEMBRANE TRANSPORT | Genes involved in SLC-mediated transmembrane transport |
| 0.1 | 1.4 | REACTOME FORMATION OF THE TERNARY COMPLEX AND SUBSEQUENTLY THE 43S COMPLEX | Genes involved in Formation of the ternary complex, and subsequently, the 43S complex |
| 0.4 | 1.3 | REACTOME AMINO ACID SYNTHESIS AND INTERCONVERSION TRANSAMINATION | Genes involved in Amino acid synthesis and interconversion (transamination) |
| 0.3 | 1.0 | REACTOME REGULATION OF HYPOXIA INDUCIBLE FACTOR HIF BY OXYGEN | Genes involved in Regulation of Hypoxia-inducible Factor (HIF) by Oxygen |
| 0.3 | 0.8 | REACTOME REGULATION OF INSULIN SECRETION | Genes involved in Regulation of Insulin Secretion |
| 0.1 | 0.7 | REACTOME UNWINDING OF DNA | Genes involved in Unwinding of DNA |
| 0.1 | 0.6 | REACTOME ANTIVIRAL MECHANISM BY IFN STIMULATED GENES | Genes involved in Antiviral mechanism by IFN-stimulated genes |