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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT1G02230
Z-value: 1.29
Transcription factors associated with AT1G02230
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT1G02230
|
AT1G02230 | NAC domain containing protein 4 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| NAC004 | arTal_v1_Chr1_-_436922_436922 | -0.11 | 7.1e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr2_+_18346306_18346306 Show fit | 2.02 |
AT2G44460.1
|
beta glucosidase 28 |
|
| arTal_v1_Chr2_+_18347765_18347765 Show fit | 1.99 |
AT2G44460.2
|
beta glucosidase 28 |
|
| arTal_v1_Chr4_+_2189515_2189515 Show fit | 1.36 |
AT4G04410.1
|
|
|
| arTal_v1_Chr1_+_24472873_24472873 Show fit | 1.22 |
AT1G65800.1
AT1G65800.2 |
receptor kinase 2 |
|
| arTal_v1_Chr5_-_6850237_6850237 Show fit | 1.20 |
AT5G20280.1
|
sucrose phosphate synthase 1F |
|
| arTal_v1_Chr1_-_27994178_27994178 Show fit | 1.17 |
AT1G74480.1
|
RWP-RK domain-containing protein |
|
| arTal_v1_Chr5_-_8160343_8160343 Show fit | 1.14 |
AT5G24120.2
AT5G24120.1 |
sigma factor E |
|
| arTal_v1_Chr3_+_8918679_8918679 Show fit | 1.14 |
AT3G24500.2
|
multiprotein bridging factor 1C |
|
| arTal_v1_Chr5_-_4430901_4430901 Show fit | 1.07 |
AT5G13730.1
|
sigma factor 4 |
|
| arTal_v1_Chr3_+_8918267_8918267 Show fit | 1.07 |
AT3G24500.1
|
multiprotein bridging factor 1C |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT1G02230
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 4.1 | GO:0010207 | photosystem II assembly(GO:0010207) |
| 0.1 | 4.0 | GO:0015995 | chlorophyll biosynthetic process(GO:0015995) |
| 0.1 | 3.9 | GO:0072598 | protein localization to chloroplast(GO:0072598) |
| 0.2 | 3.7 | GO:0009904 | chloroplast accumulation movement(GO:0009904) |
| 0.1 | 3.3 | GO:0016145 | S-glycoside catabolic process(GO:0016145) glycosinolate catabolic process(GO:0019759) glucosinolate catabolic process(GO:0019762) |
| 0.6 | 3.0 | GO:0019419 | sulfate reduction(GO:0019419) |
| 0.1 | 3.0 | GO:0048506 | regulation of timing of meristematic phase transition(GO:0048506) regulation of timing of transition from vegetative to reproductive phase(GO:0048510) |
| 0.3 | 2.9 | GO:0010188 | response to microbial phytotoxin(GO:0010188) |
| 0.2 | 2.5 | GO:2000071 | regulation of defense response by callose deposition(GO:2000071) |
| 0.0 | 2.5 | GO:0048511 | circadian rhythm(GO:0007623) rhythmic process(GO:0048511) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 27.3 | GO:0009532 | plastid stroma(GO:0009532) |
| 0.0 | 5.5 | GO:0005777 | peroxisome(GO:0005777) microbody(GO:0042579) |
| 0.1 | 4.8 | GO:0009707 | chloroplast outer membrane(GO:0009707) |
| 0.0 | 3.4 | GO:0031976 | chloroplast thylakoid(GO:0009534) plastid thylakoid(GO:0031976) |
| 0.0 | 2.8 | GO:0000790 | nuclear chromatin(GO:0000790) |
| 0.0 | 2.7 | GO:0018995 | 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) |
| 0.1 | 2.6 | GO:0098807 | chloroplast thylakoid membrane protein complex(GO:0098807) |
| 0.2 | 2.1 | GO:0000427 | plastid-encoded plastid RNA polymerase complex(GO:0000427) |
| 0.1 | 1.9 | GO:0009654 | photosystem II oxygen evolving complex(GO:0009654) |
| 0.1 | 1.9 | GO:0044439 | microbody part(GO:0044438) peroxisomal part(GO:0044439) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 9.2 | GO:0043531 | ADP binding(GO:0043531) |
| 0.2 | 6.8 | GO:0050135 | NAD(P)+ nucleosidase activity(GO:0050135) |
| 0.1 | 5.8 | GO:0102483 | scopolin beta-glucosidase activity(GO:0102483) |
| 0.0 | 5.2 | GO:0000978 | RNA polymerase II core promoter proximal region sequence-specific DNA binding(GO:0000978) |
| 0.6 | 3.3 | GO:0004838 | L-tyrosine:2-oxoglutarate aminotransferase activity(GO:0004838) L-tyrosine aminotransferase activity(GO:0070547) |
| 0.4 | 3.2 | GO:0000996 | core DNA-dependent RNA polymerase binding promoter specificity activity(GO:0000996) sigma factor activity(GO:0016987) |
| 0.0 | 3.1 | GO:0003724 | RNA helicase activity(GO:0003724) |
| 0.8 | 3.0 | GO:0033741 | adenylyl-sulfate reductase activity(GO:0009973) adenylyl-sulfate reductase (glutathione) activity(GO:0033741) |
| 0.0 | 3.0 | GO:0051082 | unfolded protein binding(GO:0051082) |
| 0.1 | 2.9 | GO:0003713 | transcription coactivator activity(GO:0003713) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 0.9 | PID AP1 PATHWAY | AP-1 transcription factor network |
| 0.0 | 0.3 | PID FANCONI PATHWAY | Fanconi anemia pathway |
| 0.0 | 0.2 | PID DELTA NP63 PATHWAY | Validated transcriptional targets of deltaNp63 isoforms |
| 0.0 | 0.2 | PID CDC42 PATHWAY | CDC42 signaling events |
| 0.0 | 0.1 | PID BETA CATENIN NUC PATHWAY | Regulation of nuclear beta catenin signaling and target gene transcription |
| 0.0 | 0.1 | PID ATM PATHWAY | ATM pathway |
| 0.0 | 0.1 | PID RAS PATHWAY | Regulation of Ras family activation |
| 0.0 | 0.1 | PID TELOMERASE PATHWAY | Regulation of Telomerase |
| 0.0 | 0.1 | PID E2F PATHWAY | E2F transcription factor network |
| 0.0 | 0.1 | PID P53 DOWNSTREAM PATHWAY | Direct p53 effectors |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 0.9 | REACTOME FORMATION OF INCISION COMPLEX IN GG NER | Genes involved in Formation of incision complex in GG-NER |
| 0.0 | 0.8 | REACTOME NONSENSE MEDIATED DECAY ENHANCED BY THE EXON JUNCTION COMPLEX | Genes involved in Nonsense Mediated Decay Enhanced by the Exon Junction Complex |
| 0.1 | 0.6 | REACTOME SYNTHESIS OF BILE ACIDS AND BILE SALTS VIA 7ALPHA HYDROXYCHOLESTEROL | Genes involved in Synthesis of bile acids and bile salts via 7alpha-hydroxycholesterol |
| 0.2 | 0.5 | REACTOME GASTRIN CREB SIGNALLING PATHWAY VIA PKC AND MAPK | Genes involved in Gastrin-CREB signalling pathway via PKC and MAPK |
| 0.1 | 0.4 | REACTOME PEROXISOMAL LIPID METABOLISM | Genes involved in Peroxisomal lipid metabolism |
| 0.0 | 0.3 | REACTOME PYRUVATE METABOLISM AND CITRIC ACID TCA CYCLE | Genes involved in Pyruvate metabolism and Citric Acid (TCA) cycle |
| 0.0 | 0.3 | REACTOME REPAIR SYNTHESIS FOR GAP FILLING BY DNA POL IN TC NER | Genes involved in Repair synthesis for gap-filling by DNA polymerase in TC-NER |
| 0.1 | 0.2 | REACTOME G2 M DNA DAMAGE CHECKPOINT | Genes involved in G2/M DNA damage checkpoint |
| 0.1 | 0.1 | REACTOME CYCLIN E ASSOCIATED EVENTS DURING G1 S TRANSITION | Genes involved in Cyclin E associated events during G1/S transition |
| 0.0 | 0.1 | REACTOME NRAGE SIGNALS DEATH THROUGH JNK | Genes involved in NRAGE signals death through JNK |