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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT2G42200
Z-value: 0.95
Transcription factors associated with AT2G42200
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT2G42200
|
AT2G42200 | squamosa promoter binding protein-like 9 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| SPL9 | arTal_v1_Chr2_+_17587169_17587169 | -0.11 | 7.0e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr1_+_209208_209208 Show fit | 0.82 |
AT1G01580.1
|
ferric reduction oxidase 2 |
|
| arTal_v1_Chr1_+_208995_208995 Show fit | 0.81 |
AT1G01580.2
|
ferric reduction oxidase 2 |
|
| arTal_v1_Chr3_+_4104463_4104463 Show fit | 0.72 |
AT3G12900.1
|
2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily protein |
|
| arTal_v1_Chr3_+_1693548_1693548 Show fit | 0.65 |
AT3G05727.1
|
S locus-related glycoprotein 1 (SLR1) binding pollen coat protein family |
|
| arTal_v1_Chr4_-_7406994_7406994 Show fit | 0.64 |
AT4G12480.1
|
Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein |
|
| arTal_v1_Chr4_-_7401951_7401951 Show fit | 0.58 |
AT4G12470.1
|
azelaic acid induced 1 |
|
| arTal_v1_Chr1_+_28975255_28975255 Show fit | 0.58 |
AT1G77120.1
|
alcohol dehydrogenase 1 |
|
| arTal_v1_Chr3_+_4729399_4729438 Show fit | 0.55 |
AT3G14210.1
AT3G14210.2 |
GDSL-like lipase/acylhydrolase superfamily protein |
|
| arTal_v1_Chr1_+_18546086_18546165 Show fit | 0.53 |
AT1G50050.2
AT1G50050.1 |
CAP (Cysteine-rich secretory proteins, Antigen 5, and Pathogenesis-related 1 protein) superfamily protein |
|
| arTal_v1_Chr2_+_16079679_16079679 Show fit | 0.52 |
AT2G38390.1
|
Peroxidase superfamily protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT2G42200
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 5.8 | GO:0006412 | translation(GO:0006412) |
| 0.1 | 4.3 | GO:0055072 | iron ion homeostasis(GO:0055072) |
| 0.1 | 3.0 | GO:0015995 | chlorophyll biosynthetic process(GO:0015995) |
| 0.0 | 3.0 | GO:0042274 | ribosomal small subunit biogenesis(GO:0042274) |
| 0.0 | 2.4 | GO:0016579 | protein deubiquitination(GO:0016579) |
| 0.1 | 2.1 | GO:0045036 | protein targeting to chloroplast(GO:0045036) establishment of protein localization to chloroplast(GO:0072596) |
| 0.1 | 2.0 | GO:0000027 | ribosomal large subunit assembly(GO:0000027) |
| 0.0 | 1.9 | GO:0006413 | translational initiation(GO:0006413) |
| 0.1 | 1.8 | GO:2000071 | regulation of defense response by callose deposition(GO:2000071) |
| 0.1 | 1.7 | GO:0000373 | Group II intron splicing(GO:0000373) |
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 | 12.7 | GO:0030054 | cell-cell junction(GO:0005911) plasmodesma(GO:0009506) cell junction(GO:0030054) symplast(GO:0055044) |
| 0.0 | 6.2 | GO:0009532 | plastid stroma(GO:0009532) |
| 0.0 | 5.4 | GO:0022625 | cytosolic large ribosomal subunit(GO:0022625) |
| 0.1 | 5.1 | GO:0022627 | cytosolic small ribosomal subunit(GO:0022627) |
| 0.0 | 5.0 | GO:0099503 | secretory vesicle(GO:0099503) |
| 0.0 | 3.3 | GO:0009941 | chloroplast envelope(GO:0009941) |
| 0.0 | 3.1 | GO:0005768 | endosome(GO:0005768) |
| 0.0 | 2.4 | GO:0009707 | chloroplast outer membrane(GO:0009707) |
| 0.0 | 2.1 | GO:0031969 | chloroplast membrane(GO:0031969) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 9.6 | GO:0003729 | mRNA binding(GO:0003729) poly(A) RNA binding(GO:0044822) |
| 0.0 | 7.6 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 0.0 | 4.0 | GO:0051082 | unfolded protein binding(GO:0051082) |
| 0.0 | 4.0 | GO:0043531 | ADP binding(GO:0043531) |
| 0.0 | 3.5 | GO:0003724 | RNA helicase activity(GO:0003724) |
| 0.1 | 3.2 | GO:0050135 | NAD(P)+ nucleosidase activity(GO:0050135) |
| 0.0 | 3.2 | GO:0008017 | microtubule binding(GO:0008017) |
| 0.1 | 2.9 | GO:0008553 | hydrogen-exporting ATPase activity, phosphorylative mechanism(GO:0008553) |
| 0.0 | 2.3 | 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 | 2.2 | GO:0036459 | thiol-dependent ubiquitin-specific protease activity(GO:0004843) thiol-dependent ubiquitinyl hydrolase activity(GO:0036459) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 0.6 | PID S1P META PATHWAY | Sphingosine 1-phosphate (S1P) pathway |
| 0.1 | 0.5 | PID BCR 5PATHWAY | BCR signaling pathway |
| 0.1 | 0.5 | PID BARD1 PATHWAY | BARD1 signaling events |
| 0.1 | 0.4 | SIG CHEMOTAXIS | Genes related to chemotaxis |
| 0.1 | 0.4 | PID ENDOTHELIN PATHWAY | Endothelins |
| 0.1 | 0.4 | PID HIF1 TFPATHWAY | HIF-1-alpha transcription factor network |
| 0.0 | 0.4 | NABA CORE MATRISOME | Ensemble of genes encoding core extracellular matrix including ECM glycoproteins, collagens and proteoglycans |
| 0.1 | 0.3 | PID HNF3B PATHWAY | FOXA2 and FOXA3 transcription factor networks |
| 0.1 | 0.2 | PID BETA CATENIN NUC PATHWAY | Regulation of nuclear beta catenin signaling and target gene transcription |
| 0.1 | 0.2 | PID HIF2PATHWAY | HIF-2-alpha transcription factor network |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 1.2 | REACTOME FORMATION OF THE TERNARY COMPLEX AND SUBSEQUENTLY THE 43S COMPLEX | Genes involved in Formation of the ternary complex, and subsequently, the 43S complex |
| 0.3 | 0.8 | REACTOME GABA SYNTHESIS RELEASE REUPTAKE AND DEGRADATION | Genes involved in GABA synthesis, release, reuptake and degradation |
| 0.2 | 0.7 | REACTOME LOSS OF NLP FROM MITOTIC CENTROSOMES | Genes involved in Loss of Nlp from mitotic centrosomes |
| 0.1 | 0.7 | REACTOME LIPID DIGESTION MOBILIZATION AND TRANSPORT | Genes involved in Lipid digestion, mobilization, and transport |
| 0.2 | 0.5 | REACTOME TCR SIGNALING | Genes involved in TCR signaling |
| 0.1 | 0.5 | REACTOME SLC MEDIATED TRANSMEMBRANE TRANSPORT | Genes involved in SLC-mediated transmembrane transport |
| 0.1 | 0.5 | REACTOME NONSENSE MEDIATED DECAY ENHANCED BY THE EXON JUNCTION COMPLEX | Genes involved in Nonsense Mediated Decay Enhanced by the Exon Junction Complex |
| 0.1 | 0.4 | REACTOME P130CAS LINKAGE TO MAPK SIGNALING FOR INTEGRINS | Genes involved in p130Cas linkage to MAPK signaling for integrins |
| 0.1 | 0.4 | REACTOME G2 M DNA DAMAGE CHECKPOINT | Genes involved in G2/M DNA damage checkpoint |
| 0.1 | 0.4 | REACTOME SIGNALING BY RHO GTPASES | Genes involved in Signaling by Rho GTPases |