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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT5G52660
Z-value: 2.07
Transcription factors associated with AT5G52660
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT5G52660
|
AT5G52660 | Homeodomain-like superfamily protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| AT5G52660 | arTal_v1_Chr5_-_21362160_21362273 | 0.69 | 6.0e-03 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr2_-_17710433_17710433 Show fit | 5.18 |
AT2G42530.1
|
cold regulated 15b |
|
| arTal_v1_Chr1_+_28975255_28975255 Show fit | 4.32 |
AT1G77120.1
|
alcohol dehydrogenase 1 |
|
| arTal_v1_Chr2_+_538250_538250 Show fit | 4.28 |
AT2G02120.1
|
Scorpion toxin-like knottin superfamily protein |
|
| arTal_v1_Chr5_-_14753088_14753088 Show fit | 3.90 |
AT5G37260.1
|
Homeodomain-like superfamily protein |
|
| arTal_v1_Chr5_-_17199793_17199910 Show fit | 3.84 |
AT5G42900.1
AT5G42900.3 AT5G42900.2 |
cold regulated protein 27 |
|
| arTal_v1_Chr4_-_13016235_13016235 Show fit | 3.25 |
AT4G25470.1
|
C-repeat/DRE binding factor 2 |
|
| arTal_v1_Chr5_-_5692920_5692992 Show fit | 3.01 |
AT5G17300.2
AT5G17300.1 |
Homeodomain-like superfamily protein |
|
| arTal_v1_Chr1_-_3756998_3756998 Show fit | 2.86 |
AT1G11210.1
|
cotton fiber protein, putative (DUF761) |
|
| arTal_v1_Chr4_-_7401951_7401951 Show fit | 2.82 |
AT4G12470.1
|
azelaic acid induced 1 |
|
| arTal_v1_Chr5_+_25040540_25040540 Show fit | 2.73 |
AT5G62360.1
|
Plant invertase/pectin methylesterase inhibitor superfamily protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT5G52660
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 23.9 | GO:0007623 | circadian rhythm(GO:0007623) rhythmic process(GO:0048511) |
| 0.4 | 23.0 | GO:0009631 | cold acclimation(GO:0009631) |
| 0.0 | 6.7 | GO:0009737 | response to abscisic acid(GO:0009737) |
| 0.9 | 4.3 | GO:0043279 | response to caffeine(GO:0031000) response to alkaloid(GO:0043279) |
| 0.1 | 4.1 | GO:0010286 | heat acclimation(GO:0010286) |
| 0.0 | 3.5 | GO:0046686 | response to cadmium ion(GO:0046686) |
| 0.1 | 3.1 | GO:0000413 | protein peptidyl-prolyl isomerization(GO:0000413) |
| 0.1 | 3.1 | GO:0061077 | chaperone-mediated protein folding(GO:0061077) |
| 0.1 | 3.0 | GO:0006636 | unsaturated fatty acid biosynthetic process(GO:0006636) |
| 0.2 | 2.9 | GO:0010044 | response to aluminum ion(GO:0010044) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 11.5 | GO:0009941 | chloroplast envelope(GO:0009941) |
| 0.0 | 9.8 | GO:0009534 | chloroplast thylakoid(GO:0009534) |
| 0.0 | 7.8 | GO:0000785 | chromatin(GO:0000785) |
| 0.0 | 5.4 | GO:0005618 | cell wall(GO:0005618) external encapsulating structure(GO:0030312) |
| 0.0 | 4.2 | GO:0009705 | plant-type vacuole membrane(GO:0009705) |
| 0.1 | 4.0 | GO:0009707 | chloroplast outer membrane(GO:0009707) |
| 0.0 | 2.5 | GO:0000138 | Golgi trans cisterna(GO:0000138) |
| 0.0 | 2.5 | GO:0005802 | trans-Golgi network(GO:0005802) |
| 0.3 | 2.4 | GO:0010445 | nuclear dicing body(GO:0010445) |
| 0.0 | 2.2 | GO:0016604 | nuclear body(GO:0016604) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 20.0 | GO:0003700 | nucleic acid binding transcription factor activity(GO:0001071) transcription factor activity, sequence-specific DNA binding(GO:0003700) |
| 0.0 | 6.6 | GO:0001159 | core promoter proximal region sequence-specific DNA binding(GO:0000987) core promoter proximal region DNA binding(GO:0001159) |
| 0.1 | 6.0 | GO:0000156 | phosphorelay response regulator activity(GO:0000156) |
| 0.0 | 5.5 | GO:0004674 | protein serine/threonine kinase activity(GO:0004674) |
| 0.2 | 5.0 | GO:0048029 | monosaccharide binding(GO:0048029) |
| 0.6 | 4.8 | GO:0004024 | alcohol dehydrogenase activity, zinc-dependent(GO:0004024) |
| 0.1 | 4.2 | GO:0043621 | protein self-association(GO:0043621) |
| 0.1 | 4.0 | GO:0044183 | protein binding involved in protein folding(GO:0044183) |
| 0.0 | 3.7 | GO:0016820 | hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances(GO:0016820) ATPase activity, coupled to transmembrane movement of substances(GO:0042626) ATPase activity, coupled to movement of substances(GO:0043492) |
| 0.5 | 3.6 | GO:0016781 | phosphotransferase activity, paired acceptors(GO:0016781) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 2.2 | PID MTOR 4PATHWAY | mTOR signaling pathway |
| 0.3 | 1.7 | PID AP1 PATHWAY | AP-1 transcription factor network |
| 0.2 | 0.9 | PID HIF2PATHWAY | HIF-2-alpha transcription factor network |
| 0.2 | 0.9 | ST INTEGRIN SIGNALING PATHWAY | Integrin Signaling Pathway |
| 0.1 | 0.7 | PID CIRCADIAN PATHWAY | Circadian rhythm pathway |
| 0.1 | 0.6 | PID RAC1 PATHWAY | RAC1 signaling pathway |
| 0.1 | 0.2 | SA G2 AND M PHASES | Cdc25 activates the cdc2/cyclin B complex to induce the G2/M transition. |
| 0.1 | 0.2 | PID TAP63 PATHWAY | Validated transcriptional targets of TAp63 isoforms |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.7 | 2.8 | REACTOME LOSS OF NLP FROM MITOTIC CENTROSOMES | Genes involved in Loss of Nlp from mitotic centrosomes |
| 0.2 | 1.7 | REACTOME INTERFERON SIGNALING | Genes involved in Interferon Signaling |
| 0.3 | 0.9 | REACTOME ABACAVIR TRANSPORT AND METABOLISM | Genes involved in Abacavir transport and metabolism |
| 0.2 | 0.9 | REACTOME PHASE II CONJUGATION | Genes involved in Phase II conjugation |
| 0.2 | 0.7 | REACTOME BMAL1 CLOCK NPAS2 ACTIVATES CIRCADIAN EXPRESSION | Genes involved in BMAL1:CLOCK/NPAS2 Activates Circadian Expression |
| 0.0 | 0.7 | REACTOME FACTORS INVOLVED IN MEGAKARYOCYTE DEVELOPMENT AND PLATELET PRODUCTION | Genes involved in Factors involved in megakaryocyte development and platelet production |
| 0.2 | 0.5 | REACTOME NRAGE SIGNALS DEATH THROUGH JNK | Genes involved in NRAGE signals death through JNK |
| 0.1 | 0.4 | REACTOME SIGNAL ATTENUATION | Genes involved in Signal attenuation |
| 0.1 | 0.3 | REACTOME PEROXISOMAL LIPID METABOLISM | Genes involved in Peroxisomal lipid metabolism |
| 0.0 | 0.3 | REACTOME NONSENSE MEDIATED DECAY ENHANCED BY THE EXON JUNCTION COMPLEX | Genes involved in Nonsense Mediated Decay Enhanced by the Exon Junction Complex |