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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT5G04410
Z-value: 1.62
Transcription factors associated with AT5G04410
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT5G04410
|
AT5G04410 | NAC domain containing protein 2 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| NAC2 | arTal_v1_Chr5_+_1243684_1243684 | -0.22 | 4.6e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr4_-_13317640_13317640 Show fit | 2.06 |
AT4G26320.1
|
arabinogalactan protein 13 |
|
| arTal_v1_Chr5_+_1629610_1629610 Show fit | 2.06 |
AT5G05500.1
|
Pollen Ole e 1 allergen and extensin family protein |
|
| arTal_v1_Chr4_-_993039_993039 Show fit | 2.03 |
AT4G02270.1
|
root hair specific 13 |
|
| arTal_v1_Chr4_-_18581696_18581696 Show fit | 1.95 |
AT4G40090.1
|
arabinogalactan protein 3 |
|
| arTal_v1_Chr4_+_7434199_7434199 Show fit | 1.93 |
AT4G12545.1
|
Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein |
|
| arTal_v1_Chr5_-_3172701_3172701 Show fit | 1.83 |
AT5G10130.1
|
Pollen Ole e 1 allergen and extensin family protein |
|
| arTal_v1_Chr3_+_16770888_16770888 Show fit | 1.83 |
AT3G45680.1
|
Major facilitator superfamily protein |
|
| arTal_v1_Chr5_+_21603569_21603569 Show fit | 1.81 |
AT5G53250.1
|
arabinogalactan protein 22 |
|
| arTal_v1_Chr3_+_8008534_8008534 Show fit | 1.80 |
AT3G22620.1
|
Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein |
|
| arTal_v1_Chr2_-_9538963_9538963 Show fit | 1.72 |
AT2G22470.1
|
arabinogalactan protein 2 |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT5G04410
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 9.2 | GO:0010411 | xyloglucan metabolic process(GO:0010411) |
| 0.2 | 6.8 | GO:0010345 | suberin biosynthetic process(GO:0010345) |
| 0.2 | 5.3 | GO:0045492 | xylan biosynthetic process(GO:0045492) |
| 0.1 | 5.1 | GO:0006749 | glutathione metabolic process(GO:0006749) |
| 0.2 | 3.9 | GO:0006022 | aminoglycan metabolic process(GO:0006022) |
| 0.1 | 3.2 | GO:0009834 | plant-type secondary cell wall biogenesis(GO:0009834) |
| 0.3 | 2.9 | GO:0010106 | cellular response to iron ion starvation(GO:0010106) |
| 0.3 | 2.8 | GO:0010230 | alternative respiration(GO:0010230) |
| 0.1 | 2.5 | GO:0010227 | floral organ abscission(GO:0010227) |
| 0.1 | 2.5 | GO:0009691 | cytokinin biosynthetic process(GO:0009691) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 37.7 | GO:0005576 | extracellular region(GO:0005576) |
| 0.1 | 16.4 | GO:0031225 | anchored component of membrane(GO:0031225) |
| 0.1 | 10.5 | GO:0009505 | plant-type cell wall(GO:0009505) |
| 0.0 | 7.6 | GO:0030312 | cell wall(GO:0005618) external encapsulating structure(GO:0030312) |
| 0.1 | 5.7 | GO:0005764 | lysosome(GO:0005764) |
| 0.0 | 3.2 | GO:0005615 | extracellular space(GO:0005615) |
| 0.0 | 3.1 | GO:0090575 | RNA polymerase II transcription factor complex(GO:0090575) |
| 0.0 | 3.1 | GO:0009705 | plant-type vacuole membrane(GO:0009705) |
| 0.0 | 2.3 | GO:0005811 | lipid particle(GO:0005811) |
| 0.5 | 2.1 | GO:0031314 | extrinsic component of mitochondrial inner membrane(GO:0031314) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 7.3 | GO:0004601 | peroxidase activity(GO:0004601) |
| 0.9 | 7.1 | GO:0033946 | xyloglucan-specific endo-beta-1,4-glucanase activity(GO:0033946) |
| 0.3 | 6.9 | GO:0052716 | hydroquinone:oxygen oxidoreductase activity(GO:0052716) |
| 0.1 | 5.5 | GO:0004197 | cysteine-type endopeptidase activity(GO:0004197) |
| 0.1 | 4.6 | GO:0004364 | glutathione transferase activity(GO:0004364) |
| 0.2 | 3.9 | GO:0004568 | chitinase activity(GO:0004568) |
| 0.1 | 3.5 | GO:0080044 | quercetin 7-O-glucosyltransferase activity(GO:0080044) |
| 0.1 | 3.1 | GO:0016760 | cellulose synthase (UDP-forming) activity(GO:0016760) |
| 0.1 | 2.8 | GO:0016762 | xyloglucan:xyloglucosyl transferase activity(GO:0016762) |
| 0.7 | 2.7 | GO:0036218 | dTTP diphosphatase activity(GO:0036218) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.5 | 1.4 | PID IL12 2PATHWAY | IL12-mediated signaling events |
| 0.3 | 1.0 | PID HIV NEF PATHWAY | HIV-1 Nef: Negative effector of Fas and TNF-alpha |
| 0.2 | 0.5 | PID AURORA A PATHWAY | Aurora A signaling |
| 0.1 | 0.5 | PID ERA GENOMIC PATHWAY | Validated nuclear estrogen receptor alpha network |
| 0.1 | 0.5 | ST FAS SIGNALING PATHWAY | Fas Signaling Pathway |
| 0.1 | 0.5 | PID NOTCH PATHWAY | Notch signaling pathway |
| 0.1 | 0.4 | PID ECADHERIN NASCENT AJ PATHWAY | E-cadherin signaling in the nascent adherens junction |
| 0.1 | 0.2 | PID MYC REPRESS PATHWAY | Validated targets of C-MYC transcriptional repression |
| 0.1 | 0.1 | PID ARF6 DOWNSTREAM PATHWAY | Arf6 downstream pathway |
| 0.0 | 0.1 | SIG CHEMOTAXIS | Genes related to chemotaxis |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 1.5 | REACTOME MHC CLASS II ANTIGEN PRESENTATION | Genes involved in MHC class II antigen presentation |
| 0.3 | 1.0 | REACTOME NUCLEOTIDE BINDING DOMAIN LEUCINE RICH REPEAT CONTAINING RECEPTOR NLR SIGNALING PATHWAYS | Genes involved in Nucleotide-binding domain, leucine rich repeat containing receptor (NLR) signaling pathways |
| 0.0 | 0.6 | REACTOME ABCA TRANSPORTERS IN LIPID HOMEOSTASIS | Genes involved in ABCA transporters in lipid homeostasis |
| 0.0 | 0.6 | REACTOME ABC FAMILY PROTEINS MEDIATED TRANSPORT | Genes involved in ABC-family proteins mediated transport |
| 0.1 | 0.5 | REACTOME SIGNALING BY NOTCH1 | Genes involved in Signaling by NOTCH1 |
| 0.1 | 0.5 | REACTOME MITOCHONDRIAL PROTEIN IMPORT | Genes involved in Mitochondrial Protein Import |
| 0.1 | 0.5 | REACTOME METABOLISM OF VITAMINS AND COFACTORS | Genes involved in Metabolism of vitamins and cofactors |
| 0.0 | 0.5 | REACTOME ACTIVATION OF THE PRE REPLICATIVE COMPLEX | Genes involved in Activation of the pre-replicative complex |
| 0.1 | 0.4 | REACTOME SIGNALING BY ROBO RECEPTOR | Genes involved in Signaling by Robo receptor |
| 0.1 | 0.4 | REACTOME PHASE II CONJUGATION | Genes involved in Phase II conjugation |