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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT4G34410
Z-value: 0.81
Transcription factors associated with AT4G34410
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT4G34410
|
AT4G34410 | redox responsive transcription factor 1 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| RRTF1 | arTal_v1_Chr4_+_16451876_16451876 | 0.45 | 1.1e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr4_+_11150049_11150049 Show fit | 1.09 |
AT4G20820.1
|
FAD-binding Berberine family protein |
|
| arTal_v1_Chr3_-_18373147_18373147 Show fit | 0.94 |
AT3G49570.1
|
response to low sulfur 3 |
|
| arTal_v1_Chr2_-_8850111_8850111 Show fit | 0.90 |
AT2G20560.1
|
DNAJ heat shock family protein |
|
| arTal_v1_Chr5_-_26519242_26519242 Show fit | 0.90 |
AT5G66400.2
|
Dehydrin family protein |
|
| arTal_v1_Chr1_+_28143851_28143851 Show fit | 0.85 |
AT1G74930.1
|
Integrase-type DNA-binding superfamily protein |
|
| arTal_v1_Chr1_-_7388512_7388512 Show fit | 0.84 |
AT1G21100.1
|
O-methyltransferase family protein |
|
| arTal_v1_Chr2_-_17472984_17472984 Show fit | 0.83 |
AT2G41870.1
|
Remorin family protein |
|
| arTal_v1_Chr3_-_17441242_17441242 Show fit | 0.83 |
AT3G47340.3
AT3G47340.2 |
glutamine-dependent asparagine synthase 1 |
|
| arTal_v1_Chr3_-_21008064_21008068 Show fit | 0.82 |
AT3G56710.1
AT3G56710.2 |
sigma factor binding protein 1 |
|
| arTal_v1_Chr1_-_754262_754262 Show fit | 0.82 |
AT1G03130.1
|
photosystem I subunit D-2 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT4G34410
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 4.8 | GO:0010200 | response to chitin(GO:0010200) |
| 0.3 | 3.5 | GO:0009652 | thigmotropism(GO:0009652) |
| 0.0 | 3.1 | GO:0071456 | cellular response to hypoxia(GO:0071456) |
| 0.4 | 2.4 | GO:0043617 | cellular response to sucrose starvation(GO:0043617) L-asparagine biosynthetic process(GO:0070981) L-asparagine metabolic process(GO:0070982) |
| 0.1 | 2.4 | GO:2000022 | regulation of jasmonic acid mediated signaling pathway(GO:2000022) |
| 0.1 | 2.3 | GO:0010207 | photosystem II assembly(GO:0010207) |
| 0.2 | 1.7 | GO:0009961 | response to 1-aminocyclopropane-1-carboxylic acid(GO:0009961) |
| 0.1 | 1.7 | GO:0010244 | response to low fluence blue light stimulus by blue low-fluence system(GO:0010244) |
| 0.0 | 1.7 | GO:0010087 | phloem or xylem histogenesis(GO:0010087) |
| 0.0 | 1.7 | GO:0009814 | defense response, incompatible interaction(GO:0009814) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 3.9 | GO:0009534 | chloroplast thylakoid(GO:0009534) |
| 0.0 | 2.7 | GO:0000790 | nuclear chromatin(GO:0000790) |
| 0.1 | 1.9 | GO:0009654 | photosystem II oxygen evolving complex(GO:0009654) |
| 0.2 | 1.6 | GO:0009538 | photosystem I reaction center(GO:0009538) |
| 0.1 | 1.1 | GO:0000786 | nucleosome(GO:0000786) |
| 0.0 | 1.1 | GO:0010319 | stromule(GO:0010319) |
| 0.0 | 1.1 | GO:0033643 | host(GO:0018995) host cell part(GO:0033643) host intracellular part(GO:0033646) host intracellular organelle(GO:0033647) host intracellular membrane-bounded organelle(GO:0033648) host cell nucleus(GO:0042025) intracellular region of host(GO:0043656) host cell(GO:0043657) other organism(GO:0044215) other organism cell(GO:0044216) other organism part(GO:0044217) |
| 0.0 | 0.9 | GO:0009898 | cytoplasmic side of plasma membrane(GO:0009898) |
| 0.0 | 0.9 | GO:0010287 | plastoglobule(GO:0010287) |
| 0.0 | 0.8 | GO:0000785 | chromatin(GO:0000785) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 5.3 | GO:0005509 | calcium ion binding(GO:0005509) |
| 0.0 | 3.4 | GO:0000978 | RNA polymerase II core promoter proximal region sequence-specific DNA binding(GO:0000978) |
| 0.3 | 2.4 | GO:0004066 | asparagine synthase (glutamine-hydrolyzing) activity(GO:0004066) |
| 0.0 | 2.2 | GO:0016709 | oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen(GO:0016709) |
| 0.0 | 2.0 | GO:0003924 | GTPase activity(GO:0003924) |
| 0.2 | 1.1 | GO:0031492 | nucleosomal DNA binding(GO:0031492) |
| 0.1 | 1.1 | GO:0008453 | alanine-glyoxylate transaminase activity(GO:0008453) |
| 0.0 | 1.1 | GO:0017137 | Rab GTPase binding(GO:0017137) |
| 0.2 | 1.0 | GO:0009041 | uridylate kinase activity(GO:0009041) |
| 0.1 | 1.0 | GO:0004506 | squalene monooxygenase activity(GO:0004506) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 0.2 | PID CIRCADIAN PATHWAY | Circadian rhythm pathway |
| 0.0 | 0.2 | PID MYC ACTIV PATHWAY | Validated targets of C-MYC transcriptional activation |
| 0.0 | 0.1 | PID P73PATHWAY | p73 transcription factor network |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 0.5 | REACTOME L1CAM INTERACTIONS | Genes involved in L1CAM interactions |
| 0.1 | 0.4 | REACTOME PROCESSING OF CAPPED INTRON CONTAINING PRE MRNA | Genes involved in Processing of Capped Intron-Containing Pre-mRNA |
| 0.0 | 0.3 | REACTOME G0 AND EARLY G1 | Genes involved in G0 and Early G1 |
| 0.1 | 0.2 | REACTOME BMAL1 CLOCK NPAS2 ACTIVATES CIRCADIAN EXPRESSION | Genes involved in BMAL1:CLOCK/NPAS2 Activates Circadian Expression |
| 0.0 | 0.2 | REACTOME FATTY ACID TRIACYLGLYCEROL AND KETONE BODY METABOLISM | Genes involved in Fatty acid, triacylglycerol, and ketone body metabolism |
| 0.0 | 0.1 | REACTOME DOPAMINE NEUROTRANSMITTER RELEASE CYCLE | Genes involved in Dopamine Neurotransmitter Release Cycle |
| 0.0 | 0.1 | REACTOME GOLGI ASSOCIATED VESICLE BIOGENESIS | Genes involved in Golgi Associated Vesicle Biogenesis |