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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT1G49560
Z-value: 3.15
Transcription factors associated with AT1G49560
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT1G49560
|
AT1G49560 | Homeodomain-like superfamily protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| AT1G49560 | arTal_v1_Chr1_+_18342451_18342466 | 0.76 | 1.7e-03 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr1_-_10289666_10289666 Show fit | 4.17 |
AT1G29395.1
|
COLD REGULATED 314 INNER MEMBRANE 1 |
|
| arTal_v1_Chr5_+_20151163_20151163 Show fit | 4.10 |
AT5G49640.1
|
hypothetical protein |
|
| arTal_v1_Chr3_-_2699257_2699257 Show fit | 4.00 |
AT3G08860.2
|
PYRIMIDINE 4 |
|
| arTal_v1_Chr2_+_19245591_19245684 Show fit | 3.97 |
AT2G46830.1
AT2G46830.2 |
circadian clock associated 1 |
|
| arTal_v1_Chr1_+_28975255_28975255 Show fit | 3.91 |
AT1G77120.1
|
alcohol dehydrogenase 1 |
|
| arTal_v1_Chr3_-_2699420_2699420 Show fit | 3.91 |
AT3G08860.1
|
PYRIMIDINE 4 |
|
| arTal_v1_Chr2_-_19370478_19370478 Show fit | 3.84 |
AT2G47180.1
|
galactinol synthase 1 |
|
| arTal_v1_Chr2_+_19246681_19246681 Show fit | 3.70 |
AT2G46830.3
|
circadian clock associated 1 |
|
| arTal_v1_Chr1_+_3019639_3019639 Show fit | 3.33 |
AT1G09350.1
|
galactinol synthase 3 |
|
| arTal_v1_Chr2_-_16603059_16603061 Show fit | 3.21 |
AT2G39800.2
AT2G39800.4 AT2G39800.3 |
delta1-pyrroline-5-carboxylate synthase 1 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT1G49560
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 14.4 | GO:0018105 | peptidyl-serine phosphorylation(GO:0018105) peptidyl-serine modification(GO:0018209) |
| 1.8 | 10.9 | GO:0055129 | L-proline biosynthetic process(GO:0055129) |
| 0.4 | 10.5 | GO:0009902 | chloroplast relocation(GO:0009902) establishment of plastid localization(GO:0051667) |
| 1.7 | 10.3 | GO:0042754 | negative regulation of circadian rhythm(GO:0042754) |
| 0.1 | 8.5 | GO:0007018 | microtubule-based movement(GO:0007018) |
| 0.1 | 8.5 | GO:0048511 | circadian rhythm(GO:0007623) rhythmic process(GO:0048511) |
| 0.3 | 8.0 | GO:0006012 | galactose metabolic process(GO:0006012) |
| 0.2 | 7.3 | GO:0043562 | cellular response to nitrogen levels(GO:0043562) |
| 0.1 | 7.3 | GO:0016579 | protein deubiquitination(GO:0016579) |
| 0.2 | 7.2 | GO:0009911 | positive regulation of flower development(GO:0009911) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 117.4 | GO:0009536 | plastid(GO:0009536) |
| 0.0 | 48.9 | GO:0005829 | cytosol(GO:0005829) |
| 0.1 | 39.4 | GO:0009534 | chloroplast thylakoid(GO:0009534) |
| 0.1 | 27.3 | GO:0009941 | chloroplast envelope(GO:0009941) |
| 0.1 | 23.6 | GO:0009532 | plastid stroma(GO:0009532) |
| 0.1 | 11.7 | GO:0000325 | plant-type vacuole(GO:0000325) |
| 0.2 | 11.0 | GO:0031977 | thylakoid lumen(GO:0031977) |
| 0.1 | 9.1 | GO:0000790 | nuclear chromatin(GO:0000790) |
| 0.4 | 8.5 | GO:0009898 | cytoplasmic side of plasma membrane(GO:0009898) |
| 0.0 | 8.2 | GO:0031984 | organelle subcompartment(GO:0031984) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 25.2 | GO:0001071 | nucleic acid binding transcription factor activity(GO:0001071) transcription factor activity, sequence-specific DNA binding(GO:0003700) |
| 0.0 | 17.5 | GO:0044822 | mRNA binding(GO:0003729) poly(A) RNA binding(GO:0044822) |
| 0.2 | 13.6 | GO:0003777 | microtubule motor activity(GO:0003777) |
| 0.3 | 11.7 | GO:0050135 | NAD(P)+ nucleosidase activity(GO:0050135) |
| 0.1 | 10.9 | GO:0005516 | calmodulin binding(GO:0005516) |
| 0.5 | 10.6 | GO:0008559 | xenobiotic-transporting ATPase activity(GO:0008559) |
| 2.6 | 10.5 | GO:0004350 | glutamate 5-kinase activity(GO:0004349) glutamate-5-semialdehyde dehydrogenase activity(GO:0004350) |
| 0.1 | 10.5 | GO:0043531 | ADP binding(GO:0043531) |
| 1.7 | 10.1 | GO:0019904 | protein domain specific binding(GO:0019904) |
| 0.2 | 9.8 | GO:0010857 | calcium-dependent protein serine/threonine kinase activity(GO:0009931) calcium-dependent protein kinase activity(GO:0010857) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.8 | 4.1 | PID CIRCADIAN PATHWAY | Circadian rhythm pathway |
| 0.8 | 2.5 | PID TCR JNK PATHWAY | JNK signaling in the CD4+ TCR pathway |
| 0.4 | 2.2 | PID S1P S1P1 PATHWAY | S1P1 pathway |
| 0.7 | 2.1 | PID TAP63 PATHWAY | Validated transcriptional targets of TAp63 isoforms |
| 0.7 | 2.1 | PID HNF3B PATHWAY | FOXA2 and FOXA3 transcription factor networks |
| 0.7 | 2.0 | SIG PIP3 SIGNALING IN CARDIAC MYOCTES | Genes related to PIP3 signaling in cardiac myocytes |
| 0.2 | 1.9 | PID P53 DOWNSTREAM PATHWAY | Direct p53 effectors |
| 0.2 | 1.7 | PID ERBB1 DOWNSTREAM PATHWAY | ErbB1 downstream signaling |
| 0.2 | 1.5 | PID PLK1 PATHWAY | PLK1 signaling events |
| 0.4 | 1.3 | PID AMB2 NEUTROPHILS PATHWAY | amb2 Integrin signaling |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 4.1 | REACTOME FATTY ACID TRIACYLGLYCEROL AND KETONE BODY METABOLISM | Genes involved in Fatty acid, triacylglycerol, and ketone body metabolism |
| 0.7 | 3.3 | REACTOME L1CAM INTERACTIONS | Genes involved in L1CAM interactions |
| 0.8 | 3.2 | REACTOME BMAL1 CLOCK NPAS2 ACTIVATES CIRCADIAN EXPRESSION | Genes involved in BMAL1:CLOCK/NPAS2 Activates Circadian Expression |
| 0.8 | 2.5 | REACTOME ARMS MEDIATED ACTIVATION | Genes involved in ARMS-mediated activation |
| 0.5 | 2.5 | REACTOME GLUCOSE TRANSPORT | Genes involved in Glucose transport |
| 0.8 | 2.3 | REACTOME MRNA DECAY BY 5 TO 3 EXORIBONUCLEASE | Genes involved in mRNA Decay by 5' to 3' Exoribonuclease |
| 0.8 | 2.3 | REACTOME APOPTOTIC EXECUTION PHASE | Genes involved in Apoptotic execution phase |
| 0.7 | 2.1 | REACTOME INWARDLY RECTIFYING K CHANNELS | Genes involved in Inwardly rectifying K+ channels |
| 0.1 | 1.6 | REACTOME METABOLISM OF LIPIDS AND LIPOPROTEINS | Genes involved in Metabolism of lipids and lipoproteins |
| 0.1 | 1.6 | REACTOME ABC FAMILY PROTEINS MEDIATED TRANSPORT | Genes involved in ABC-family proteins mediated transport |