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GSE43616: Time-course of wild-type Arabidopsis leaf
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Results for AT5G04410
Z-value: 0.83
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 | -0.57 | 1.4e-03 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr3_+_10255906_10255941 Show fit | 2.11 |
AT3G27690.2
AT3G27690.1 |
photosystem II light harvesting complex protein 2.3 |
|
| arTal_v1_Chr1_-_29635931_29635931 Show fit | 1.95 |
AT1G78820.1
|
D-mannose binding lectin protein with Apple-like carbohydrate-binding domain-containing protein |
|
| arTal_v1_Chr3_+_5556710_5556710 Show fit | 1.80 |
AT3G16370.1
|
GDSL-like Lipase/Acylhydrolase superfamily protein |
|
| arTal_v1_Chr1_+_3157501_3157501 Show fit | 1.71 |
AT1G09750.1
|
Eukaryotic aspartyl protease family protein |
|
| arTal_v1_Chr1_-_6999839_6999839 Show fit | 1.69 |
AT1G20190.1
|
expansin 11 |
|
| arTal_v1_Chr1_-_4090857_4090857 Show fit | 1.66 |
AT1G12090.1
|
extensin-like protein |
|
| arTal_v1_Chr1_-_6999523_6999523 Show fit | 1.57 |
AT1G20190.2
|
expansin 11 |
|
| arTal_v1_Chr4_-_7493080_7493080 Show fit | 1.56 |
AT4G12730.1
|
FASCICLIN-like arabinogalactan 2 |
|
| arTal_v1_Chr4_-_176870_176870 Show fit | 1.55 |
AT4G00400.1
|
glycerol-3-phosphate acyltransferase 8 |
|
| arTal_v1_Chr1_+_10371675_10371675 Show fit | 1.54 |
AT1G29660.1
|
GDSL-like Lipase/Acylhydrolase superfamily protein |
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 | 7.7 | GO:0045490 | pectin catabolic process(GO:0045490) |
| 0.1 | 7.7 | GO:0015979 | photosynthesis(GO:0015979) |
| 0.2 | 6.2 | GO:0009828 | plant-type cell wall loosening(GO:0009828) |
| 0.1 | 5.1 | GO:0007267 | cell-cell signaling(GO:0007267) |
| 0.3 | 4.8 | GO:0015976 | carbon utilization(GO:0015976) |
| 0.1 | 4.6 | GO:0005992 | trehalose biosynthetic process(GO:0005992) |
| 0.1 | 4.6 | GO:0007018 | microtubule-based movement(GO:0007018) |
| 0.1 | 4.4 | GO:0010025 | wax biosynthetic process(GO:0010025) |
| 0.1 | 4.3 | GO:0009834 | plant-type secondary cell wall biogenesis(GO:0009834) |
| 0.4 | 3.9 | GO:0051513 | regulation of monopolar cell growth(GO:0051513) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 26.6 | GO:0005576 | extracellular region(GO:0005576) |
| 0.1 | 15.0 | GO:0048046 | apoplast(GO:0048046) |
| 0.0 | 9.1 | GO:0009570 | chloroplast stroma(GO:0009570) |
| 0.0 | 8.5 | GO:0009534 | chloroplast thylakoid(GO:0009534) |
| 0.1 | 7.1 | GO:0031977 | thylakoid lumen(GO:0031977) |
| 0.6 | 5.1 | GO:0009503 | thylakoid light-harvesting complex(GO:0009503) PSII associated light-harvesting complex II(GO:0009517) light-harvesting complex(GO:0030076) |
| 0.1 | 4.7 | GO:0010287 | plastoglobule(GO:0010287) |
| 0.0 | 4.2 | GO:0046658 | anchored component of plasma membrane(GO:0046658) |
| 0.0 | 3.3 | GO:0005615 | extracellular space(GO:0005615) |
| 0.2 | 2.7 | GO:0009531 | secondary cell wall(GO:0009531) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 6.6 | GO:0000981 | RNA polymerase II transcription factor activity, sequence-specific DNA binding(GO:0000981) |
| 0.3 | 6.0 | GO:0016168 | chlorophyll binding(GO:0016168) |
| 0.2 | 4.8 | GO:0004089 | carbonate dehydratase activity(GO:0004089) |
| 0.1 | 4.7 | GO:0046910 | pectinesterase inhibitor activity(GO:0046910) |
| 0.1 | 4.5 | GO:0003777 | microtubule motor activity(GO:0003777) |
| 0.4 | 4.0 | GO:0016423 | tRNA (guanine) methyltransferase activity(GO:0016423) |
| 0.1 | 4.0 | GO:0004650 | polygalacturonase activity(GO:0004650) |
| 0.1 | 3.5 | GO:0030570 | carbon-oxygen lyase activity, acting on polysaccharides(GO:0016837) pectate lyase activity(GO:0030570) |
| 0.0 | 3.4 | GO:0004252 | serine-type endopeptidase activity(GO:0004252) |
| 0.1 | 3.1 | GO:0052716 | hydroquinone:oxygen oxidoreductase activity(GO:0052716) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 0.8 | PID AP1 PATHWAY | AP-1 transcription factor network |
| 0.2 | 0.7 | PID MYC REPRESS PATHWAY | Validated targets of C-MYC transcriptional repression |
| 0.2 | 0.6 | PID IL12 2PATHWAY | IL12-mediated signaling events |
| 0.0 | 0.4 | SIG INSULIN RECEPTOR PATHWAY IN CARDIAC MYOCYTES | Genes related to the insulin receptor pathway |
| 0.0 | 0.3 | NABA CORE MATRISOME | Ensemble of genes encoding core extracellular matrix including ECM glycoproteins, collagens and proteoglycans |
| 0.1 | 0.2 | PID HIV NEF PATHWAY | HIV-1 Nef: Negative effector of Fas and TNF-alpha |
| 0.1 | 0.2 | PID ERA GENOMIC PATHWAY | Validated nuclear estrogen receptor alpha network |
| 0.0 | 0.1 | PID TCPTP PATHWAY | Signaling events mediated by TCPTP |
| 0.0 | 0.1 | PID HNF3B PATHWAY | FOXA2 and FOXA3 transcription factor networks |
| 0.0 | 0.1 | PID HES HEY PATHWAY | Notch-mediated HES/HEY network |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 2.5 | REACTOME REVERSIBLE HYDRATION OF CARBON DIOXIDE | Genes involved in Reversible Hydration of Carbon Dioxide |
| 0.2 | 0.7 | REACTOME TRANSCRIPTIONAL ACTIVITY OF SMAD2 SMAD3 SMAD4 HETEROTRIMER | Genes involved in Transcriptional activity of SMAD2/SMAD3:SMAD4 heterotrimer |
| 0.1 | 0.7 | REACTOME PHASE II CONJUGATION | Genes involved in Phase II conjugation |
| 0.1 | 0.7 | REACTOME MHC CLASS II ANTIGEN PRESENTATION | Genes involved in MHC class II antigen presentation |
| 0.0 | 0.6 | REACTOME FORMATION OF THE TERNARY COMPLEX AND SUBSEQUENTLY THE 43S COMPLEX | Genes involved in Formation of the ternary complex, and subsequently, the 43S complex |
| 0.1 | 0.4 | REACTOME UNWINDING OF DNA | Genes involved in Unwinding of DNA |
| 0.1 | 0.3 | REACTOME GASTRIN CREB SIGNALLING PATHWAY VIA PKC AND MAPK | Genes involved in Gastrin-CREB signalling pathway via PKC and MAPK |
| 0.0 | 0.3 | REACTOME ACTIVATION OF THE PRE REPLICATIVE COMPLEX | Genes involved in Activation of the pre-replicative complex |
| 0.1 | 0.2 | 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 |
| 0.1 | 0.2 | REACTOME G2 M DNA DAMAGE CHECKPOINT | Genes involved in G2/M DNA damage checkpoint |