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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT1G12630
Z-value: 1.11
Transcription factors associated with AT1G12630
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT1G12630
|
AT1G12630 | Integrase-type DNA-binding superfamily protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| AT1G12630 | arTal_v1_Chr1_+_4298666_4298666 | 0.21 | 4.8e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr2_-_17712290_17712330 Show fit | 2.66 |
AT2G42540.2
AT2G42540.4 AT2G42540.1 AT2G42540.3 |
cold-regulated 15a |
|
| arTal_v1_Chr5_+_5209717_5209717 Show fit | 2.12 |
AT5G15960.1
|
stress-responsive protein (KIN1) / stress-induced protein (KIN1) |
|
| arTal_v1_Chr2_-_17710433_17710433 Show fit | 2.11 |
AT2G42530.1
|
cold regulated 15b |
|
| arTal_v1_Chr5_+_5211719_5211719 Show fit | 2.03 |
AT5G15970.1
|
stress-responsive protein (KIN2) / stress-induced protein (KIN2) / cold-responsive protein (COR6.6) / cold-regulated protein (COR6.6) |
|
| arTal_v1_Chr5_+_21240717_21240717 Show fit | 2.01 |
AT5G52310.1
|
low-temperature-responsive protein 78 (LTI78) / desiccation-responsive protein 29A (RD29A) |
|
| arTal_v1_Chr3_+_4104463_4104463 Show fit | 1.89 |
AT3G12900.1
|
2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily protein |
|
| arTal_v1_Chr1_+_3019639_3019639 Show fit | 1.87 |
AT1G09350.1
|
galactinol synthase 3 |
|
| arTal_v1_Chr1_+_3020221_3020221 Show fit | 1.76 |
AT1G09350.2
|
galactinol synthase 3 |
|
| arTal_v1_Chr1_-_10289666_10289666 Show fit | 1.67 |
AT1G29395.1
|
COLD REGULATED 314 INNER MEMBRANE 1 |
|
| arTal_v1_Chr1_-_5765798_5765798 Show fit | 1.60 |
AT1G16850.1
|
transmembrane protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT1G12630
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 11.7 | GO:0009631 | cold acclimation(GO:0009631) |
| 0.1 | 5.6 | GO:0055072 | iron ion homeostasis(GO:0055072) |
| 0.2 | 4.8 | GO:0006012 | galactose metabolic process(GO:0006012) |
| 0.4 | 3.3 | GO:0009819 | drought recovery(GO:0009819) |
| 0.1 | 2.8 | GO:0010143 | cutin biosynthetic process(GO:0010143) |
| 0.0 | 2.3 | GO:0006101 | tricarboxylic acid cycle(GO:0006099) citrate metabolic process(GO:0006101) |
| 0.0 | 2.3 | GO:0042752 | regulation of circadian rhythm(GO:0042752) |
| 0.0 | 2.3 | GO:0006972 | hyperosmotic response(GO:0006972) |
| 0.1 | 2.1 | GO:0003333 | amino acid transmembrane transport(GO:0003333) |
| 0.1 | 2.1 | GO:0045489 | pectin biosynthetic process(GO:0045489) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 12.9 | GO:0005794 | Golgi apparatus(GO:0005794) |
| 0.0 | 7.2 | GO:0046658 | anchored component of plasma membrane(GO:0046658) |
| 0.0 | 5.4 | GO:0009505 | plant-type cell wall(GO:0009505) |
| 0.0 | 4.5 | GO:0031225 | anchored component of membrane(GO:0031225) |
| 0.0 | 4.4 | GO:0000138 | Golgi trans cisterna(GO:0000138) |
| 0.0 | 2.7 | GO:0009705 | plant-type vacuole membrane(GO:0009705) |
| 0.0 | 2.7 | GO:0022625 | cytosolic large ribosomal subunit(GO:0022625) |
| 0.5 | 2.1 | GO:0031357 | intrinsic component of plastid inner membrane(GO:0031352) integral component of plastid inner membrane(GO:0031353) intrinsic component of chloroplast inner membrane(GO:0031356) integral component of chloroplast inner membrane(GO:0031357) |
| 0.0 | 1.9 | GO:0005615 | extracellular space(GO:0005615) |
| 0.0 | 1.6 | GO:0080008 | Cul4-RING E3 ubiquitin ligase complex(GO:0080008) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.5 | 4.8 | GO:0047216 | inositol 3-alpha-galactosyltransferase activity(GO:0047216) |
| 0.2 | 4.7 | GO:0048029 | monosaccharide binding(GO:0048029) |
| 0.2 | 3.1 | GO:0005381 | iron ion transmembrane transporter activity(GO:0005381) |
| 0.0 | 2.9 | GO:0004650 | polygalacturonase activity(GO:0004650) |
| 0.0 | 2.6 | GO:0015171 | amino acid transmembrane transporter activity(GO:0015171) |
| 0.1 | 2.3 | GO:0005199 | structural constituent of cell wall(GO:0005199) |
| 0.3 | 2.0 | GO:0045549 | 9-cis-epoxycarotenoid dioxygenase activity(GO:0045549) |
| 0.3 | 2.0 | GO:0090447 | glycerol-3-phosphate 2-O-acyltransferase activity(GO:0090447) |
| 0.2 | 2.0 | GO:0016723 | ferric-chelate reductase activity(GO:0000293) oxidoreductase activity, oxidizing metal ions, NAD or NADP as acceptor(GO:0016723) |
| 0.1 | 2.0 | GO:0047262 | polygalacturonate 4-alpha-galacturonosyltransferase activity(GO:0047262) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 1.4 | PID CXCR4 PATHWAY | CXCR4-mediated signaling events |
| 0.1 | 1.0 | PID FANCONI PATHWAY | Fanconi anemia pathway |
| 0.1 | 0.6 | PID P53 DOWNSTREAM PATHWAY | Direct p53 effectors |
| 0.2 | 0.5 | PID PI3KCI PATHWAY | Class I PI3K signaling events |
| 0.1 | 0.5 | ST WNT BETA CATENIN PATHWAY | Wnt/beta-catenin Pathway |
| 0.4 | 0.4 | PID ECADHERIN NASCENT AJ PATHWAY | E-cadherin signaling in the nascent adherens junction |
| 0.1 | 0.4 | PID RAC1 PATHWAY | RAC1 signaling pathway |
| 0.1 | 0.2 | PID TCPTP PATHWAY | Signaling events mediated by TCPTP |
| 0.0 | 0.2 | PID HDAC CLASSII PATHWAY | Signaling events mediated by HDAC Class II |
| 0.0 | 0.1 | PID HNF3B PATHWAY | FOXA2 and FOXA3 transcription factor networks |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 2.2 | REACTOME FACTORS INVOLVED IN MEGAKARYOCYTE DEVELOPMENT AND PLATELET PRODUCTION | Genes involved in Factors involved in megakaryocyte development and platelet production |
| 0.1 | 0.8 | REACTOME POL SWITCHING | Genes involved in Polymerase switching |
| 0.1 | 0.6 | REACTOME PI METABOLISM | Genes involved in PI Metabolism |
| 0.2 | 0.5 | REACTOME PRE NOTCH EXPRESSION AND PROCESSING | Genes involved in Pre-NOTCH Expression and Processing |
| 0.1 | 0.5 | REACTOME METABOLISM OF NUCLEOTIDES | Genes involved in Metabolism of nucleotides |
| 0.1 | 0.4 | REACTOME GABA SYNTHESIS RELEASE REUPTAKE AND DEGRADATION | Genes involved in GABA synthesis, release, reuptake and degradation |
| 0.1 | 0.4 | REACTOME ANTIVIRAL MECHANISM BY IFN STIMULATED GENES | Genes involved in Antiviral mechanism by IFN-stimulated genes |
| 0.1 | 0.4 | REACTOME ASSOCIATION OF LICENSING FACTORS WITH THE PRE REPLICATIVE COMPLEX | Genes involved in Association of licensing factors with the pre-replicative complex |
| 0.1 | 0.3 | REACTOME AMINO ACID SYNTHESIS AND INTERCONVERSION TRANSAMINATION | Genes involved in Amino acid synthesis and interconversion (transamination) |
| 0.0 | 0.3 | REACTOME UNWINDING OF DNA | Genes involved in Unwinding of DNA |