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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT2G02080
Z-value: 2.28
Transcription factors associated with AT2G02080
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT2G02080
|
AT2G02080 | indeterminate(ID)-domain 4 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| IDD4 | arTal_v1_Chr2_-_521707_521737 | 0.87 | 5.2e-05 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr5_-_21992812_21992814 Show fit | 3.16 |
AT5G54190.2
AT5G54190.1 |
protochlorophyllide oxidoreductase A |
|
| arTal_v1_Chr5_+_21240717_21240717 Show fit | 3.13 |
AT5G52310.1
|
low-temperature-responsive protein 78 (LTI78) / desiccation-responsive protein 29A (RD29A) |
|
| arTal_v1_Chr4_-_7406994_7406994 Show fit | 3.02 |
AT4G12480.1
|
Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein |
|
| arTal_v1_Chr3_+_4104463_4104463 Show fit | 2.54 |
AT3G12900.1
|
2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily protein |
|
| arTal_v1_Chr1_-_1248826_1248876 Show fit | 2.51 |
AT1G04570.2
AT1G04570.1 |
Major facilitator superfamily protein |
|
| arTal_v1_Chr4_+_10707344_10707378 Show fit | 2.44 |
AT4G19690.2
AT4G19690.1 |
iron-regulated transporter 1 |
|
| arTal_v1_Chr4_-_18472048_18472048 Show fit | 2.37 |
AT4G39800.1
|
myo-inositol-1-phosphate synthase 1 |
|
| arTal_v1_Chr2_+_1966806_1966816 Show fit | 2.28 |
AT2G05380.1
AT2G05380.2 |
glycine-rich protein 3 short isoform |
|
| arTal_v1_Chr2_+_1966610_1966610 Show fit | 2.25 |
AT2G05380.3
|
glycine-rich protein 3 short isoform |
|
| arTal_v1_Chr1_+_209208_209208 Show fit | 2.25 |
AT1G01580.1
|
ferric reduction oxidase 2 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT2G02080
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 21.9 | GO:0006468 | protein phosphorylation(GO:0006468) |
| 0.1 | 12.3 | GO:0046777 | protein autophosphorylation(GO:0046777) |
| 0.2 | 8.4 | GO:0055072 | iron ion homeostasis(GO:0055072) |
| 0.0 | 8.2 | GO:0006412 | translation(GO:0006412) |
| 1.5 | 6.0 | GO:0015675 | nickel cation transport(GO:0015675) |
| 0.2 | 5.9 | GO:0006730 | one-carbon metabolic process(GO:0006730) |
| 0.0 | 5.9 | GO:0016311 | dephosphorylation(GO:0016311) |
| 0.3 | 4.6 | GO:1901259 | chloroplast rRNA processing(GO:1901259) |
| 0.3 | 4.5 | GO:0009638 | phototropism(GO:0009638) |
| 0.5 | 4.4 | GO:0010188 | response to microbial phytotoxin(GO:0010188) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 62.9 | GO:0005829 | cytosol(GO:0005829) |
| 0.0 | 48.6 | GO:0005886 | plasma membrane(GO:0005886) |
| 0.0 | 16.0 | GO:0009570 | chloroplast stroma(GO:0009570) |
| 0.1 | 14.8 | GO:0005768 | endosome(GO:0005768) |
| 0.1 | 9.6 | GO:0022625 | cytosolic large ribosomal subunit(GO:0022625) |
| 0.1 | 8.4 | GO:0080008 | Cul4-RING E3 ubiquitin ligase complex(GO:0080008) |
| 0.1 | 7.9 | GO:0009707 | chloroplast outer membrane(GO:0009707) |
| 0.1 | 7.1 | GO:0005887 | integral component of plasma membrane(GO:0005887) |
| 0.1 | 7.1 | GO:0000325 | plant-type vacuole(GO:0000325) |
| 0.0 | 6.8 | GO:0005789 | endoplasmic reticulum membrane(GO:0005789) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 34.5 | GO:0004672 | protein kinase activity(GO:0004672) |
| 0.0 | 12.0 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 0.1 | 10.6 | GO:0043531 | ADP binding(GO:0043531) |
| 0.1 | 9.0 | GO:0042626 | 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 | 8.7 | GO:0044212 | regulatory region DNA binding(GO:0000975) transcription regulatory region sequence-specific DNA binding(GO:0000976) regulatory region nucleic acid binding(GO:0001067) transcription regulatory region DNA binding(GO:0044212) |
| 0.0 | 7.9 | GO:0003729 | mRNA binding(GO:0003729) poly(A) RNA binding(GO:0044822) |
| 0.1 | 7.1 | GO:0003724 | RNA helicase activity(GO:0003724) |
| 0.0 | 7.1 | GO:0042803 | protein homodimerization activity(GO:0042803) |
| 0.1 | 7.0 | GO:0051082 | unfolded protein binding(GO:0051082) |
| 0.6 | 6.4 | GO:0000293 | ferric-chelate reductase activity(GO:0000293) oxidoreductase activity, oxidizing metal ions, NAD or NADP as acceptor(GO:0016723) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 2.6 | PID HIF1 TFPATHWAY | HIF-1-alpha transcription factor network |
| 0.5 | 2.5 | PID CIRCADIAN PATHWAY | Circadian rhythm pathway |
| 0.7 | 2.0 | SIG PIP3 SIGNALING IN CARDIAC MYOCTES | Genes related to PIP3 signaling in cardiac myocytes |
| 0.6 | 1.7 | PID HNF3B PATHWAY | FOXA2 and FOXA3 transcription factor networks |
| 0.3 | 1.3 | PID DELTA NP63 PATHWAY | Validated transcriptional targets of deltaNp63 isoforms |
| 0.1 | 1.2 | PID MYC ACTIV PATHWAY | Validated targets of C-MYC transcriptional activation |
| 0.3 | 1.0 | ST G ALPHA I PATHWAY | G alpha i Pathway |
| 0.2 | 0.9 | PID AP1 PATHWAY | AP-1 transcription factor network |
| 0.2 | 0.8 | PID S1P META PATHWAY | Sphingosine 1-phosphate (S1P) pathway |
| 0.1 | 0.5 | PID ATR PATHWAY | ATR signaling pathway |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.2 | 3.7 | REACTOME GABA SYNTHESIS RELEASE REUPTAKE AND DEGRADATION | Genes involved in GABA synthesis, release, reuptake and degradation |
| 0.1 | 2.7 | REACTOME INFLUENZA LIFE CYCLE | Genes involved in Influenza Life Cycle |
| 0.7 | 2.0 | REACTOME TRNA AMINOACYLATION | Genes involved in tRNA Aminoacylation |
| 0.5 | 2.0 | REACTOME SYNTHESIS OF BILE ACIDS AND BILE SALTS VIA 7ALPHA HYDROXYCHOLESTEROL | Genes involved in Synthesis of bile acids and bile salts via 7alpha-hydroxycholesterol |
| 0.5 | 1.8 | REACTOME BMAL1 CLOCK NPAS2 ACTIVATES CIRCADIAN EXPRESSION | Genes involved in BMAL1:CLOCK/NPAS2 Activates Circadian Expression |
| 0.3 | 1.7 | REACTOME SLC MEDIATED TRANSMEMBRANE TRANSPORT | Genes involved in SLC-mediated transmembrane transport |
| 0.2 | 1.7 | REACTOME INTERFERON SIGNALING | Genes involved in Interferon Signaling |
| 0.1 | 1.7 | REACTOME FACTORS INVOLVED IN MEGAKARYOCYTE DEVELOPMENT AND PLATELET PRODUCTION | Genes involved in Factors involved in megakaryocyte development and platelet production |
| 0.5 | 1.6 | REACTOME ABACAVIR TRANSPORT AND METABOLISM | Genes involved in Abacavir transport and metabolism |
| 0.3 | 1.3 | REACTOME L1CAM INTERACTIONS | Genes involved in L1CAM interactions |