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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT3G60580
Z-value: 6.67
Transcription factors associated with AT3G60580
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT3G60580
|
AT3G60580 | C2H2-like zinc finger protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| AT3G60580 | arTal_v1_Chr3_+_22393823_22393823 | 0.62 | 1.9e-02 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr2_-_17710433_17710433 Show fit | 11.51 |
AT2G42530.1
|
cold regulated 15b |
|
| arTal_v1_Chr4_-_7401951_7401951 Show fit | 8.63 |
AT4G12470.1
|
azelaic acid induced 1 |
|
| arTal_v1_Chr1_+_3019639_3019639 Show fit | 8.49 |
AT1G09350.1
|
galactinol synthase 3 |
|
| arTal_v1_Chr1_+_3020221_3020221 Show fit | 7.83 |
AT1G09350.2
|
galactinol synthase 3 |
|
| arTal_v1_Chr1_+_18546086_18546165 Show fit | 7.29 |
AT1G50050.2
AT1G50050.1 |
CAP (Cysteine-rich secretory proteins, Antigen 5, and Pathogenesis-related 1 protein) superfamily protein |
|
| arTal_v1_Chr3_-_489467_489467 Show fit | 6.80 |
AT3G02380.1
|
CONSTANS-like 2 |
|
| arTal_v1_Chr4_+_8827600_8827710 Show fit | 6.20 |
AT4G15430.2
AT4G15430.1 |
ERD (early-responsive to dehydration stress) family protein |
|
| arTal_v1_Chr5_-_6725966_6725966 Show fit | 6.11 |
AT5G19890.1
|
Peroxidase superfamily protein |
|
| arTal_v1_Chr1_-_37757_37871 Show fit | 5.91 |
AT1G01060.3
AT1G01060.2 AT1G01060.4 AT1G01060.1 AT1G01060.6 AT1G01060.7 AT1G01060.5 |
Homeodomain-like superfamily protein |
|
| arTal_v1_Chr2_+_15106940_15106940 Show fit | 5.86 |
AT2G35960.1
|
NDR1/HIN1-like 12 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT3G60580
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 42.3 | GO:0006412 | translation(GO:0006412) |
| 0.4 | 24.4 | GO:0009631 | cold acclimation(GO:0009631) |
| 0.5 | 22.9 | GO:0015995 | chlorophyll biosynthetic process(GO:0015995) |
| 0.2 | 21.5 | GO:0048511 | circadian rhythm(GO:0007623) rhythmic process(GO:0048511) |
| 0.6 | 20.3 | GO:0006012 | galactose metabolic process(GO:0006012) |
| 1.4 | 20.2 | GO:0010100 | negative regulation of photomorphogenesis(GO:0010100) |
| 0.1 | 20.2 | GO:0046777 | protein autophosphorylation(GO:0046777) |
| 0.4 | 20.1 | GO:0002181 | cytoplasmic translation(GO:0002181) |
| 0.2 | 19.6 | GO:0009658 | chloroplast organization(GO:0009658) |
| 0.3 | 18.9 | GO:0034605 | cellular response to heat(GO:0034605) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 257.6 | GO:0009536 | plastid(GO:0009536) |
| 0.1 | 136.0 | GO:0044434 | chloroplast part(GO:0044434) |
| 0.1 | 86.5 | GO:0055044 | cell-cell junction(GO:0005911) plasmodesma(GO:0009506) cell junction(GO:0030054) symplast(GO:0055044) |
| 0.0 | 78.8 | GO:0005634 | nucleus(GO:0005634) |
| 0.0 | 58.8 | GO:0005829 | cytosol(GO:0005829) |
| 0.0 | 47.4 | GO:0005886 | plasma membrane(GO:0005886) |
| 0.2 | 44.0 | GO:0005802 | trans-Golgi network(GO:0005802) |
| 0.3 | 39.6 | GO:0015934 | large ribosomal subunit(GO:0015934) |
| 0.3 | 32.5 | GO:0080008 | Cul4-RING E3 ubiquitin ligase complex(GO:0080008) |
| 0.3 | 28.7 | GO:0022627 | cytosolic small ribosomal subunit(GO:0022627) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 70.6 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 0.1 | 40.1 | GO:0044822 | mRNA binding(GO:0003729) poly(A) RNA binding(GO:0044822) |
| 0.0 | 33.8 | GO:0004672 | protein kinase activity(GO:0004672) |
| 0.1 | 33.2 | GO:0008270 | zinc ion binding(GO:0008270) |
| 0.4 | 29.4 | GO:0051082 | unfolded protein binding(GO:0051082) |
| 0.4 | 26.5 | GO:0043621 | protein self-association(GO:0043621) |
| 0.2 | 24.4 | GO:0000978 | RNA polymerase II core promoter proximal region sequence-specific DNA binding(GO:0000978) |
| 0.7 | 23.0 | GO:0050135 | NAD(P)+ nucleosidase activity(GO:0050135) |
| 0.3 | 21.0 | GO:0003724 | RNA helicase activity(GO:0003724) |
| 2.3 | 20.9 | GO:0047216 | inositol 3-alpha-galactosyltransferase activity(GO:0047216) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.5 | 3.3 | PID INTEGRIN3 PATHWAY | Beta3 integrin cell surface interactions |
| 1.1 | 3.2 | ST GAQ PATHWAY | G alpha q Pathway |
| 0.5 | 3.2 | PID MTOR 4PATHWAY | mTOR signaling pathway |
| 1.0 | 3.1 | ST B CELL ANTIGEN RECEPTOR | B Cell Antigen Receptor |
| 0.7 | 2.6 | PID HIF2PATHWAY | HIF-2-alpha transcription factor network |
| 0.3 | 2.1 | PID ATR PATHWAY | ATR signaling pathway |
| 0.3 | 1.9 | PID BARD1 PATHWAY | BARD1 signaling events |
| 0.4 | 1.5 | PID SHP2 PATHWAY | SHP2 signaling |
| 0.2 | 1.5 | PID E2F PATHWAY | E2F transcription factor network |
| 0.3 | 1.3 | PID ATF2 PATHWAY | ATF-2 transcription factor network |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.9 | 23.4 | REACTOME TRANSLATION | Genes involved in Translation |
| 2.2 | 8.6 | REACTOME RECRUITMENT OF MITOTIC CENTROSOME PROTEINS AND COMPLEXES | Genes involved in Recruitment of mitotic centrosome proteins and complexes |
| 1.6 | 6.3 | REACTOME SYNTHESIS OF BILE ACIDS AND BILE SALTS | Genes involved in Synthesis of bile acids and bile salts |
| 0.5 | 3.8 | REACTOME POL SWITCHING | Genes involved in Polymerase switching |
| 0.4 | 3.3 | REACTOME PPARA ACTIVATES GENE EXPRESSION | Genes involved in PPARA Activates Gene Expression |
| 0.8 | 3.2 | REACTOME PEROXISOMAL LIPID METABOLISM | Genes involved in Peroxisomal lipid metabolism |
| 0.6 | 3.0 | REACTOME SLC MEDIATED TRANSMEMBRANE TRANSPORT | Genes involved in SLC-mediated transmembrane transport |
| 1.0 | 2.9 | REACTOME GLYCOSPHINGOLIPID METABOLISM | Genes involved in Glycosphingolipid metabolism |
| 0.7 | 2.9 | REACTOME LIPOPROTEIN METABOLISM | Genes involved in Lipoprotein metabolism |
| 0.9 | 2.7 | REACTOME DEADENYLATION OF MRNA | Genes involved in Deadenylation of mRNA |