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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT5G17300
Z-value: 1.28
Transcription factors associated with AT5G17300
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT5G17300
|
AT5G17300 | Homeodomain-like superfamily protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| RVE1 | arTal_v1_Chr5_-_5692920_5692992 | 0.59 | 2.8e-02 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr2_-_17712290_17712330 Show fit | 3.19 |
AT2G42540.2
AT2G42540.4 AT2G42540.1 AT2G42540.3 |
cold-regulated 15a |
|
| arTal_v1_Chr5_+_5209717_5209717 Show fit | 2.72 |
AT5G15960.1
|
stress-responsive protein (KIN1) / stress-induced protein (KIN1) |
|
| arTal_v1_Chr2_-_17710433_17710433 Show fit | 2.55 |
AT2G42530.1
|
cold regulated 15b |
|
| arTal_v1_Chr2_+_538250_538250 Show fit | 2.20 |
AT2G02120.1
|
Scorpion toxin-like knottin superfamily protein |
|
| arTal_v1_Chr5_+_21240717_21240717 Show fit | 1.93 |
AT5G52310.1
|
low-temperature-responsive protein 78 (LTI78) / desiccation-responsive protein 29A (RD29A) |
|
| arTal_v1_Chr5_+_20151163_20151163 Show fit | 1.90 |
AT5G49640.1
|
hypothetical protein |
|
| arTal_v1_Chr5_-_17199793_17199910 Show fit | 1.79 |
AT5G42900.1
AT5G42900.3 AT5G42900.2 |
cold regulated protein 27 |
|
| arTal_v1_Chr3_-_2699257_2699257 Show fit | 1.75 |
AT3G08860.2
|
PYRIMIDINE 4 |
|
| arTal_v1_Chr3_+_20612693_20612693 Show fit | 1.75 |
AT3G55580.1
|
Regulator of chromosome condensation (RCC1) family protein |
|
| arTal_v1_Chr3_-_2699420_2699420 Show fit | 1.71 |
AT3G08860.1
|
PYRIMIDINE 4 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT5G17300
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 10.7 | GO:0009631 | cold acclimation(GO:0009631) |
| 0.1 | 9.2 | GO:0048511 | circadian rhythm(GO:0007623) rhythmic process(GO:0048511) |
| 0.0 | 7.3 | GO:0006412 | translation(GO:0006412) |
| 0.1 | 6.6 | GO:0016145 | S-glycoside catabolic process(GO:0016145) glycosinolate catabolic process(GO:0019759) glucosinolate catabolic process(GO:0019762) |
| 0.1 | 5.4 | GO:0015994 | chlorophyll metabolic process(GO:0015994) |
| 0.7 | 4.8 | GO:0010438 | cellular response to sulfur starvation(GO:0010438) |
| 0.3 | 4.8 | GO:0010100 | negative regulation of photomorphogenesis(GO:0010100) |
| 0.8 | 4.6 | GO:0055129 | L-proline biosynthetic process(GO:0055129) |
| 0.4 | 4.1 | GO:0009608 | response to symbiont(GO:0009608) |
| 0.2 | 3.9 | GO:0046838 | phosphorylated carbohydrate dephosphorylation(GO:0046838) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 77.9 | GO:0005634 | nucleus(GO:0005634) |
| 0.0 | 61.7 | GO:0005829 | cytosol(GO:0005829) |
| 0.1 | 34.9 | GO:0009532 | plastid stroma(GO:0009532) |
| 0.1 | 27.3 | GO:0009534 | chloroplast thylakoid(GO:0009534) |
| 0.1 | 11.5 | GO:0000790 | nuclear chromatin(GO:0000790) |
| 0.2 | 10.4 | GO:0009707 | chloroplast outer membrane(GO:0009707) |
| 0.2 | 10.1 | GO:0031977 | thylakoid lumen(GO:0031977) |
| 0.1 | 5.7 | GO:0080008 | Cul4-RING E3 ubiquitin ligase complex(GO:0080008) |
| 0.1 | 5.5 | GO:0031969 | chloroplast membrane(GO:0031969) |
| 0.0 | 4.8 | GO:0005768 | endosome(GO:0005768) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 13.6 | GO:0003729 | mRNA binding(GO:0003729) poly(A) RNA binding(GO:0044822) |
| 0.1 | 11.3 | GO:0043531 | ADP binding(GO:0043531) |
| 0.1 | 9.3 | GO:0000978 | RNA polymerase II core promoter proximal region sequence-specific DNA binding(GO:0000978) |
| 0.2 | 8.4 | GO:0050135 | NAD(P)+ nucleosidase activity(GO:0050135) |
| 0.0 | 7.7 | GO:0008270 | zinc ion binding(GO:0008270) |
| 0.0 | 7.6 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 0.1 | 6.6 | GO:0003755 | peptidyl-prolyl cis-trans isomerase activity(GO:0003755) |
| 0.1 | 6.6 | GO:0003727 | single-stranded RNA binding(GO:0003727) |
| 0.1 | 6.2 | GO:0102483 | scopolin beta-glucosidase activity(GO:0102483) |
| 0.1 | 6.2 | GO:0003724 | RNA helicase activity(GO:0003724) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 1.6 | PID CIRCADIAN PATHWAY | Circadian rhythm pathway |
| 0.2 | 1.5 | PID HIF1 TFPATHWAY | HIF-1-alpha transcription factor network |
| 0.4 | 1.2 | PID HNF3B PATHWAY | FOXA2 and FOXA3 transcription factor networks |
| 0.2 | 0.9 | PID S1P META PATHWAY | Sphingosine 1-phosphate (S1P) pathway |
| 0.3 | 0.8 | PID TAP63 PATHWAY | Validated transcriptional targets of TAp63 isoforms |
| 0.2 | 0.8 | PID AP1 PATHWAY | AP-1 transcription factor network |
| 0.2 | 0.7 | PID NECTIN PATHWAY | Nectin adhesion pathway |
| 0.1 | 0.7 | PID NOTCH PATHWAY | Notch signaling pathway |
| 0.1 | 0.7 | PID P53 DOWNSTREAM PATHWAY | Direct p53 effectors |
| 0.1 | 0.6 | PID IL4 2PATHWAY | IL4-mediated signaling events |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.9 | 2.7 | REACTOME GABA SYNTHESIS RELEASE REUPTAKE AND DEGRADATION | Genes involved in GABA synthesis, release, reuptake and degradation |
| 0.1 | 1.9 | REACTOME HIV LIFE CYCLE | Genes involved in HIV Life Cycle |
| 0.3 | 1.6 | REACTOME L1CAM INTERACTIONS | Genes involved in L1CAM interactions |
| 0.4 | 1.5 | REACTOME LOSS OF NLP FROM MITOTIC CENTROSOMES | Genes involved in Loss of Nlp from mitotic centrosomes |
| 0.5 | 1.4 | REACTOME ABACAVIR TRANSPORT AND METABOLISM | Genes involved in Abacavir transport and metabolism |
| 0.3 | 1.3 | REACTOME BMAL1 CLOCK NPAS2 ACTIVATES CIRCADIAN EXPRESSION | Genes involved in BMAL1:CLOCK/NPAS2 Activates Circadian Expression |
| 0.3 | 1.1 | REACTOME SYNTHESIS OF BILE ACIDS AND BILE SALTS | Genes involved in Synthesis of bile acids and bile salts |
| 0.0 | 1.0 | REACTOME NONSENSE MEDIATED DECAY ENHANCED BY THE EXON JUNCTION COMPLEX | Genes involved in Nonsense Mediated Decay Enhanced by the Exon Junction Complex |
| 0.3 | 0.9 | REACTOME MRNA DECAY BY 5 TO 3 EXORIBONUCLEASE | Genes involved in mRNA Decay by 5' to 3' Exoribonuclease |
| 0.3 | 0.8 | REACTOME REGULATION OF INSULIN SECRETION | Genes involved in Regulation of Insulin Secretion |