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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT2G22540
Z-value: 1.22
Transcription factors associated with AT2G22540
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT2G22540
|
AT2G22540 | K-box region and MADS-box transcription factor family protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| SVP | arTal_v1_Chr2_+_9579647_9579647 | 0.11 | 7.1e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr3_-_17441242_17441242 Show fit | 0.95 |
AT3G47340.3
AT3G47340.2 |
glutamine-dependent asparagine synthase 1 |
|
| arTal_v1_Chr3_-_17441431_17441431 Show fit | 0.92 |
AT3G47340.1
|
glutamine-dependent asparagine synthase 1 |
|
| arTal_v1_Chr3_-_17440176_17440176 Show fit | 0.92 |
AT3G47340.4
|
glutamine-dependent asparagine synthase 1 |
|
| arTal_v1_Chr1_+_18546086_18546165 Show fit | 0.62 |
AT1G50050.2
AT1G50050.1 |
CAP (Cysteine-rich secretory proteins, Antigen 5, and Pathogenesis-related 1 protein) superfamily protein |
|
| arTal_v1_Chr1_+_3777236_3777236 Show fit | 0.56 |
AT1G11260.1
|
sugar transporter 1 |
|
| arTal_v1_Chr5_-_7250770_7250770 Show fit | 0.53 |
AT5G21940.1
|
hybrid signal transduction histidine kinase M-like protein |
|
| arTal_v1_Chr4_-_9393650_9393650 Show fit | 0.51 |
AT4G16690.1
|
methyl esterase 16 |
|
| arTal_v1_Chr2_-_9569784_9569784 Show fit | 0.51 |
AT2G22510.1
|
hydroxyproline-rich glycoprotein family protein |
|
| arTal_v1_Chr3_-_16625043_16625043 Show fit | 0.50 |
AT3G45300.1
|
isovaleryl-CoA-dehydrogenase |
|
| arTal_v1_Chr3_-_21293158_21293171 Show fit | 0.47 |
AT3G57520.2
AT3G57520.3 AT3G57520.1 |
seed imbibition 2 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT2G22540
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.5 | 2.8 | GO:0070981 | cellular response to sucrose starvation(GO:0043617) L-asparagine biosynthetic process(GO:0070981) L-asparagine metabolic process(GO:0070982) |
| 0.0 | 1.5 | GO:0009694 | jasmonic acid metabolic process(GO:0009694) |
| 0.0 | 1.4 | GO:0031146 | SCF-dependent proteasomal ubiquitin-dependent protein catabolic process(GO:0031146) |
| 0.1 | 1.1 | GO:0006814 | sodium ion transport(GO:0006814) |
| 0.0 | 1.1 | GO:0010584 | pollen exine formation(GO:0010584) |
| 0.0 | 1.1 | GO:0016102 | diterpenoid biosynthetic process(GO:0016102) |
| 0.0 | 1.1 | GO:0048235 | pollen sperm cell differentiation(GO:0048235) |
| 0.1 | 0.8 | GO:0010076 | maintenance of floral meristem identity(GO:0010076) |
| 0.0 | 0.8 | GO:0009736 | cytokinin-activated signaling pathway(GO:0009736) |
| 0.1 | 0.7 | GO:0043407 | negative regulation of MAP kinase activity(GO:0043407) negative regulation of MAPK cascade(GO:0043409) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 1.5 | GO:0019005 | SCF ubiquitin ligase complex(GO:0019005) |
| 0.0 | 0.6 | GO:0016324 | apical plasma membrane(GO:0016324) |
| 0.2 | 0.5 | GO:0005652 | nuclear lamina(GO:0005652) |
| 0.1 | 0.5 | GO:0033063 | Rad51B-Rad51C-Rad51D-XRCC2 complex(GO:0033063) |
| 0.1 | 0.5 | GO:0031205 | endoplasmic reticulum Sec complex(GO:0031205) |
| 0.1 | 0.4 | GO:0043073 | germ cell nucleus(GO:0043073) |
| 0.0 | 0.4 | GO:0000148 | 1,3-beta-D-glucan synthase complex(GO:0000148) |
| 0.0 | 0.4 | GO:0012511 | monolayer-surrounded lipid storage body(GO:0012511) |
| 0.1 | 0.3 | GO:1990124 | messenger ribonucleoprotein complex(GO:1990124) |
| 0.0 | 0.3 | GO:0031082 | BLOC complex(GO:0031082) BLOC-1 complex(GO:0031083) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 6.4 | GO:0000977 | RNA polymerase II regulatory region sequence-specific DNA binding(GO:0000977) RNA polymerase II regulatory region DNA binding(GO:0001012) |
| 0.4 | 2.8 | GO:0004066 | asparagine synthase (glutamine-hydrolyzing) activity(GO:0004066) |
| 0.0 | 1.5 | GO:0015385 | sodium:proton antiporter activity(GO:0015385) |
| 0.0 | 1.3 | GO:0000156 | phosphorelay response regulator activity(GO:0000156) |
| 0.0 | 0.9 | GO:0080032 | methyl salicylate esterase activity(GO:0080031) methyl jasmonate esterase activity(GO:0080032) |
| 0.1 | 0.7 | GO:0005086 | ARF guanyl-nucleotide exchange factor activity(GO:0005086) |
| 0.0 | 0.7 | GO:0003825 | alpha,alpha-trehalose-phosphate synthase (UDP-forming) activity(GO:0003825) |
| 0.0 | 0.7 | GO:0004523 | RNA-DNA hybrid ribonuclease activity(GO:0004523) |
| 0.1 | 0.6 | GO:0004350 | glutamate 5-kinase activity(GO:0004349) glutamate-5-semialdehyde dehydrogenase activity(GO:0004350) |
| 0.1 | 0.6 | GO:0005432 | calcium:sodium antiporter activity(GO:0005432) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 0.3 | PID CXCR4 PATHWAY | CXCR4-mediated signaling events |
| 0.0 | 0.2 | PID SMAD2 3NUCLEAR PATHWAY | Regulation of nuclear SMAD2/3 signaling |
| 0.0 | 0.2 | PID AP1 PATHWAY | AP-1 transcription factor network |
| 0.0 | 0.1 | PID TAP63 PATHWAY | Validated transcriptional targets of TAp63 isoforms |
| 0.0 | 0.1 | PID PI3KCI PATHWAY | Class I PI3K signaling events |
| 0.0 | 0.1 | PID AVB3 OPN PATHWAY | Osteopontin-mediated events |
| 0.0 | 0.0 | ST INTEGRIN SIGNALING PATHWAY | Integrin Signaling Pathway |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 0.5 | REACTOME FACTORS INVOLVED IN MEGAKARYOCYTE DEVELOPMENT AND PLATELET PRODUCTION | Genes involved in Factors involved in megakaryocyte development and platelet production |
| 0.0 | 0.4 | REACTOME METABOLISM OF AMINO ACIDS AND DERIVATIVES | Genes involved in Metabolism of amino acids and derivatives |
| 0.1 | 0.3 | REACTOME FORMATION OF TUBULIN FOLDING INTERMEDIATES BY CCT TRIC | Genes involved in Formation of tubulin folding intermediates by CCT/TriC |
| 0.1 | 0.3 | REACTOME GASTRIN CREB SIGNALLING PATHWAY VIA PKC AND MAPK | Genes involved in Gastrin-CREB signalling pathway via PKC and MAPK |
| 0.1 | 0.3 | REACTOME METABOLISM OF NUCLEOTIDES | Genes involved in Metabolism of nucleotides |
| 0.1 | 0.2 | REACTOME TRANSCRIPTIONAL ACTIVITY OF SMAD2 SMAD3 SMAD4 HETEROTRIMER | Genes involved in Transcriptional activity of SMAD2/SMAD3:SMAD4 heterotrimer |
| 0.0 | 0.2 | REACTOME PI METABOLISM | Genes involved in PI Metabolism |
| 0.0 | 0.1 | REACTOME GOLGI ASSOCIATED VESICLE BIOGENESIS | Genes involved in Golgi Associated Vesicle Biogenesis |
| 0.0 | 0.1 | REACTOME G2 M DNA DAMAGE CHECKPOINT | Genes involved in G2/M DNA damage checkpoint |
| 0.0 | 0.1 | REACTOME G0 AND EARLY G1 | Genes involved in G0 and Early G1 |