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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT3G18400
Z-value: 0.86
Transcription factors associated with AT3G18400
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT3G18400
|
AT3G18400 | NAC domain containing protein 58 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| NAC058 | arTal_v1_Chr3_-_6320712_6320712 | 0.42 | 1.3e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr2_-_17712290_17712330 Show fit | 1.55 |
AT2G42540.2
AT2G42540.4 AT2G42540.1 AT2G42540.3 |
cold-regulated 15a |
|
| arTal_v1_Chr2_+_538250_538250 Show fit | 1.24 |
AT2G02120.1
|
Scorpion toxin-like knottin superfamily protein |
|
| arTal_v1_Chr5_+_21240717_21240717 Show fit | 1.10 |
AT5G52310.1
|
low-temperature-responsive protein 78 (LTI78) / desiccation-responsive protein 29A (RD29A) |
|
| arTal_v1_Chr3_+_4104463_4104463 Show fit | 1.01 |
AT3G12900.1
|
2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily protein |
|
| arTal_v1_Chr1_-_9275193_9275193 Show fit | 0.95 |
AT1G26790.1
|
Dof-type zinc finger DNA-binding family protein |
|
| arTal_v1_Chr4_+_15451988_15451988 Show fit | 0.93 |
AT4G31940.1
|
cytochrome P450, family 82, subfamily C, polypeptide 4 |
|
| arTal_v1_Chr4_+_14954204_14954204 Show fit | 0.88 |
AT4G30650.1
|
Low temperature and salt responsive protein family |
|
| arTal_v1_Chr4_-_7401951_7401951 Show fit | 0.87 |
AT4G12470.1
|
azelaic acid induced 1 |
|
| arTal_v1_Chr1_-_10164452_10164452 Show fit | 0.82 |
AT1G29090.1
|
Cysteine proteinases superfamily protein |
|
| arTal_v1_Chr4_+_8827600_8827710 Show fit | 0.81 |
AT4G15430.2
AT4G15430.1 |
ERD (early-responsive to dehydration stress) family protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT3G18400
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 2.7 | GO:0010143 | cutin biosynthetic process(GO:0010143) |
| 0.2 | 2.1 | GO:0009819 | drought recovery(GO:0009819) |
| 0.1 | 2.0 | GO:0055072 | iron ion homeostasis(GO:0055072) |
| 0.4 | 1.9 | GO:0072708 | response to sorbitol(GO:0072708) |
| 0.1 | 1.8 | GO:0072506 | phosphate ion homeostasis(GO:0055062) trivalent inorganic anion homeostasis(GO:0072506) |
| 0.1 | 1.8 | GO:1902074 | response to salt(GO:1902074) |
| 0.1 | 1.6 | GO:0010345 | suberin biosynthetic process(GO:0010345) |
| 0.0 | 1.6 | GO:0048767 | root hair elongation(GO:0048767) |
| 0.0 | 1.5 | GO:0009631 | cold acclimation(GO:0009631) |
| 0.1 | 1.4 | GO:0009269 | response to desiccation(GO:0009269) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 2.2 | GO:0046658 | anchored component of plasma membrane(GO:0046658) |
| 0.0 | 1.9 | GO:0022627 | cytosolic small ribosomal subunit(GO:0022627) |
| 0.0 | 1.7 | GO:0022625 | cytosolic large ribosomal subunit(GO:0022625) |
| 0.0 | 1.5 | GO:0000138 | Golgi trans cisterna(GO:0000138) |
| 0.0 | 1.5 | GO:0080008 | Cul4-RING E3 ubiquitin ligase complex(GO:0080008) |
| 0.1 | 1.4 | GO:0031012 | extracellular matrix(GO:0031012) |
| 0.0 | 1.4 | GO:0005764 | lysosome(GO:0005764) |
| 0.0 | 1.1 | GO:0005615 | extracellular space(GO:0005615) |
| 0.0 | 1.1 | GO:0090575 | RNA polymerase II transcription factor complex(GO:0090575) |
| 0.0 | 0.9 | GO:0005797 | Golgi medial cisterna(GO:0005797) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 3.0 | GO:0016157 | sucrose synthase activity(GO:0016157) |
| 0.0 | 2.2 | GO:0004650 | polygalacturonase activity(GO:0004650) |
| 0.1 | 1.7 | GO:0048029 | monosaccharide binding(GO:0048029) |
| 0.0 | 1.6 | GO:0043621 | protein self-association(GO:0043621) |
| 0.0 | 1.6 | GO:0004197 | cysteine-type endopeptidase activity(GO:0004197) |
| 0.2 | 1.5 | GO:0090447 | glycerol-3-phosphate 2-O-acyltransferase activity(GO:0090447) |
| 0.1 | 1.4 | GO:0016723 | ferric-chelate reductase activity(GO:0000293) oxidoreductase activity, oxidizing metal ions, NAD or NADP as acceptor(GO:0016723) |
| 0.0 | 1.4 | GO:0030145 | manganese ion binding(GO:0030145) |
| 0.0 | 1.4 | GO:0001228 | transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding(GO:0001228) |
| 0.1 | 1.3 | GO:0015086 | cadmium ion transmembrane transporter activity(GO:0015086) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 0.6 | PID ECADHERIN NASCENT AJ PATHWAY | E-cadherin signaling in the nascent adherens junction |
| 0.1 | 0.5 | PID HIF2PATHWAY | HIF-2-alpha transcription factor network |
| 0.1 | 0.4 | PID AP1 PATHWAY | AP-1 transcription factor network |
| 0.0 | 0.3 | PID MTOR 4PATHWAY | mTOR signaling pathway |
| 0.1 | 0.2 | SIG CHEMOTAXIS | Genes related to chemotaxis |
| 0.0 | 0.2 | PID IL2 PI3K PATHWAY | IL2 signaling events mediated by PI3K |
| 0.0 | 0.2 | PID RAC1 PATHWAY | RAC1 signaling pathway |
| 0.0 | 0.2 | PID P53 DOWNSTREAM PATHWAY | Direct p53 effectors |
| 0.1 | 0.1 | ST INTEGRIN SIGNALING PATHWAY | Integrin Signaling Pathway |
| 0.1 | 0.1 | PID TCPTP PATHWAY | Signaling events mediated by TCPTP |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 1.0 | REACTOME LOSS OF NLP FROM MITOTIC CENTROSOMES | Genes involved in Loss of Nlp from mitotic centrosomes |
| 0.1 | 0.6 | REACTOME INTERFERON SIGNALING | Genes involved in Interferon Signaling |
| 0.0 | 0.5 | REACTOME ABCA TRANSPORTERS IN LIPID HOMEOSTASIS | Genes involved in ABCA transporters in lipid homeostasis |
| 0.1 | 0.4 | REACTOME METABOLISM OF NUCLEOTIDES | Genes involved in Metabolism of nucleotides |
| 0.0 | 0.4 | REACTOME FORMATION OF THE TERNARY COMPLEX AND SUBSEQUENTLY THE 43S COMPLEX | Genes involved in Formation of the ternary complex, and subsequently, the 43S complex |
| 0.1 | 0.3 | REACTOME ABACAVIR TRANSPORT AND METABOLISM | Genes involved in Abacavir transport and metabolism |
| 0.1 | 0.3 | REACTOME INTRINSIC PATHWAY FOR APOPTOSIS | Genes involved in Intrinsic Pathway for Apoptosis |
| 0.1 | 0.3 | REACTOME PHASE II CONJUGATION | Genes involved in Phase II conjugation |
| 0.1 | 0.2 | REACTOME MTORC1 MEDIATED SIGNALLING | Genes involved in mTORC1-mediated signalling |
| 0.1 | 0.2 | REACTOME ARMS MEDIATED ACTIVATION | Genes involved in ARMS-mediated activation |