sienna3⬤ |
||
|---|---|---|
| Trait | PCC | P value |
| Silique | 0.42 | 9.0⋅10-151 |
| Suspensor | 0.27 | 6.0⋅10-58 |
| Proembryo | 0.25 | 5.0⋅10-49 |
| Embryo | 0.21 | 7.0⋅10-37 |
| Replum | 0.2 | 5.0⋅10-33 |
| Flower | 0.19 | 1.0⋅10-29 |
| Seed | 0.17 | 3.0⋅10-23 |
| Pistil | 0.13 | 4.0⋅10-14 |
| Stamen | 0.12 | 3.0⋅10-13 |
| Flower bud | 0.11 | 3.0⋅10-10 |
| Inflorescence | 0.11 | 1.0⋅10-11 |
| Rosette | -0.065 | 1.0⋅10-4 |
| Aerial tissue | -0.07 | 4.0⋅10-5 |
| Root | -0.074 | 1.0⋅10-5 |
| Leaf | -0.084 | 6.0⋅10-7 |
| Seedling | -0.18 | 5.0⋅10-27 |
| Module Enrichments |
|---|
| Gene Ontology: Biological Process | |||||
|---|---|---|---|---|---|
| Rank | Pvalue | Hits | Over-representation | Accession | Biological Process |
| 1 | 4.4⋅10-3 | 2/6 (33.3%) | 129.3 | GO:0002084 | protein depalmitoylation |
| 2 | 4.4⋅10-3 | 2/6 (33.3%) | 129.3 | GO:0042159 | lipoprotein catabolic process |
| 3 | 4.4⋅10-3 | 5/168 (3.0%) | 11.5 | GO:0044092 | negative regulation of molecular function |
| 4 | 4.4⋅10-3 | 5/155 (3.2%) | 12.5 | GO:0043086 | negative regulation of catalytic activity |
| 5 | 4.9⋅10-3 | 2/7 (28.6%) | 110.8 | GO:0010023 | proanthocyanidin biosynthetic process |
| 6 | 5.0⋅10-3 | 3/46 (6.5%) | 25.3 | GO:0035670 | plant-type ovary development |
| 7 | 5.0⋅10-3 | 3/46 (6.5%) | 25.3 | GO:0048481 | plant ovule development |
| 8 | 5.0⋅10-3 | 2/8 (25.0%) | 97 | GO:0098734 | macromolecule depalmitoylation |
| 9 | 7.6⋅10-3 | 2/12 (16.7%) | 64.7 | GO:0018958 | phenol-containing compound metabolic process |
| 10 | 7.6⋅10-3 | 2/12 (16.7%) | 64.7 | GO:0046189 | phenol-containing compound biosynthetic process |
| 11 | 9.7⋅10-3 | 3/64 (4.7%) | 18.2 | GO:0048440 | carpel development |
| 12 | 1.5⋅10-2 | 3/76 (3.9%) | 15.3 | GO:0048467 | gynoecium development |
| 13 | 3.7⋅10-2 | 5/402 (1.2%) | 4.8 | GO:0050790 | regulation of catalytic activity |
| 14 | 3.7⋅10-2 | 2/34 (5.9%) | 22.8 | GO:0010214 | seed coat development |
| 15 | 3.7⋅10-2 | 2/34 (5.9%) | 22.8 | GO:0098732 | macromolecule deacylation |
| 16 | 3.7⋅10-2 | 2/32 (6.2%) | 24.2 | GO:0035601 | protein deacylation |
| 17 | 3.7⋅10-2 | 2/31 (6.5%) | 25 | GO:0042157 | lipoprotein metabolic process |
| 18 | 4.9⋅10-2 | 5/434 (1.2%) | 4.5 | GO:0065009 | regulation of molecular function |
| Gene Ontology: Molecular Function | |||||
|---|---|---|---|---|---|
| Rank | Pvalue | Hits | Over-representation | Accession | Molecular Function |
| 1 | 2.0⋅10-3 | 5/141 (3.5%) | 13.8 | GO:0004857 | enzyme inhibitor activity |
| 2 | 4.2⋅10-3 | 2/8 (25.0%) | 97.1 | GO:0008474 | palmitoyl-(protein) hydrolase activity |
| 3 | 4.2⋅10-3 | 2/8 (25.0%) | 97.1 | GO:0098599 | palmitoyl hydrolase activity |
| 4 | 1.0⋅10-2 | 3/64 (4.7%) | 18.2 | GO:0046910 | pectinesterase inhibitor activity |
| 5 | 1.1⋅10-2 | 5/286 (1.7%) | 6.8 | GO:0030234 | enzyme regulator activity |
| 6 | 1.5⋅10-2 | 5/317 (1.6%) | 6.1 | GO:0098772 | molecular function regulator |
| 7 | 2.6⋅10-2 | 3/107 (2.8%) | 10.9 | GO:0030599 | pectinesterase activity |
| 8 | 2.9⋅10-2 | 2/33 (6.1%) | 23.5 | GO:0016790 | thiolester hydrolase activity |
| Gene Ontology: Cellular Component | |||||
|---|---|---|---|---|---|
| Rank | Pvalue | Hits | Over-representation | Accession | Cellular Component |
| Plant Ontology: Plant Anatomy | |||||
|---|---|---|---|---|---|
| Rank | Pvalue | Hits | Over-representation | Accession | Plant Anatomy |
| 1 | 3.0⋅10-5 | 3/6 (50.0%) | 218 | PO:0020024 | endothelium |
| 2 | 6.3⋅10-5 | 4/33 (12.1%) | 52.9 | PO:0020021 | integument |
| 3 | 1.4⋅10-4 | 3/13 (23.1%) | 100.6 | PO:0020022 | inner integument |
| 4 | 9.7⋅10-3 | 3/56 (5.4%) | 23.4 | PO:0025030 | ground tissue cell |
| 5 | 1.7⋅10-2 | 7/667 (1.0%) | 4.6 | PO:0000019 | gynoecium primordium |
| 6 | 1.7⋅10-2 | 5/311 (1.6%) | 7 | PO:0025059 | portion of ground tissue |
| 7 | 2.4⋅10-2 | 2/23 (8.7%) | 37.9 | PO:0009053 | peduncle |
| 8 | 4.0⋅10-2 | 3/125 (2.4%) | 10.5 | PO:0020090 | embryo sac central cell |
| 9 | 4.0⋅10-2 | 3/122 (2.5%) | 10.7 | PO:0005421 | parenchyma |
| 10 | 4.0⋅10-2 | 6/611 (1.0%) | 4.3 | PO:0009001 | fruit |
| 11 | 4.0⋅10-2 | 2/37 (5.4%) | 23.6 | PO:0000074 | parenchyma cell |
| 12 | 4.5⋅10-2 | 2/46 (4.3%) | 19 | PO:0005426 | chlorenchyma |
| 13 | 4.5⋅10-2 | 2/46 (4.3%) | 19 | PO:0006070 | mesophyll |
| 14 | 4.5⋅10-2 | 4/302 (1.3%) | 5.8 | PO:0025279 | megagametophyte |
| 15 | 4.5⋅10-2 | 4/299 (1.3%) | 5.8 | PO:0025074 | embryo sac |
| Plant Ontology: Plant Structure Development Stage | |||||
|---|---|---|---|---|---|
| Rank | Pvalue | Hits | Over-representation | Accession | Plant Structure Development Stage |
| WikiPathways | |||||
|---|---|---|---|---|---|
| Rank | Pvalue | Hits | Over-representation | WikiPathways | Description |
| KEGG | |||||
|---|---|---|---|---|---|
| Rank | Pvalue | Hits | Over-representation | Entry | Name |
| 1 | 1.7⋅10-2 | 2/33 (6.1%) | 20.2 | ath00062 | Fatty acid elongation - Arabidopsis thaliana (thale cress) |
| 2 | 3.1⋅10-2 | 2/65 (3.1%) | 10.3 | ath01212 | Fatty acid metabolism - Arabidopsis thaliana (thale cress) |
| AraCyc | |||||
|---|---|---|---|---|---|
| Rank | Pvalue | Hits | Over-representation | PathwayID | Pathway Name |
| AtRegNet | ||||||
|---|---|---|---|---|---|---|
| Rank | Pvalue | Hits | Over-representation | TF Symbol | TF Name | TF Description |
| Plant Cistrome Database | ||||||
|---|---|---|---|---|---|---|
| Rank | Pvalue | Hits | Over-representation | TF Symbol | TF Name | TF Description |
| Pfam | |||||
|---|---|---|---|---|---|
| Rank | Pvalue | Hits | Over-representation | Family | Summary |
| 1 | 4.6⋅10-7 | 6/88 (6.8%) | 27.4 | PMEI | Plant invertase/pectin methylesterase inhibitor |
| 2 | 5.4⋅10-5 | 2/3 (66.7%) | 268 | GILT | Gamma interferon inducible lysosomal thiol reductase (GILT) |
| 3 | 1.9⋅10-4 | 2/7 (28.6%) | 114.9 | Palm_thioest | Palmitoyl protein thioesterase |
| 4 | 1.9⋅10-4 | 3/37 (8.1%) | 32.6 | K-box | K-box region |
| 5 | 9.1⋅10-4 | 3/72 (4.2%) | 16.7 | SRF-TF | SRF-type transcription factor (DNA-binding and dimerisation domain) |
| 6 | 9.1⋅10-3 | 2/58 (3.4%) | 13.9 | Sugar_tr | Sugar (and other) transporter |
| sienna3 Module: 47 genes | ||||
|---|---|---|---|---|
| Probeset | Symbol | Name | Description | Average Ranking |
| AT5G49180_at | AT5G49180 | Plant invertase/pectin methylesterase inhibitor superfamily | 9.2350719279916 | |
| AT4G15750_at | AT4G15750 | Plant invertase/pectin methylesterase inhibitor superfamily protein | 9.8358916659969 | |
| AT1G56100_at | AT1G56100 | Plant invertase/pectin methylesterase inhibitor superfamily protein | 10.238045487423 | |
| AT1G24540_at | CYP86C1 | cytochrome P450, family 86, subfamily C, polypeptide 1 | cytochrome P450, family 86, subfamily C, polypeptide 1 | 11.827372820059 |
| AT4G12890_at | AT4G12890 | Gamma interferon responsive lysosomal thiol (GILT) reductase family protein | 12.834203970104 | |
| AT5G60140_at | AT5G60140 | AP2/B3-like transcriptional factor family protein | 12.863135899703 | |
| AT5G47350_at | AT5G47350 | alpha/beta-Hydrolases superfamily protein | 13.481314795467 | |
| AT4G12960_at | GILT | gamma-interferon-responsive lysosomal thiol reductase | Gamma interferon responsive lysosomal thiol (GILT) reductase family protein | 13.612472876316 |
| AT4G26590_at | OPT5 | oligopeptide transporter 5 | oligopeptide transporter 5 | 15.008920678293 |
| AT3G20520_at | SVL3 | SHV3-like 3 | SHV3-like 3 | 15.033995017279 |
| AT4G09960_at | STK | SEEDSTICK | K-box region and MADS-box transcription factor family protein | 15.785260789199 |
| AT1G61720_at | BAN | BANYULS | NAD(P)-binding Rossmann-fold superfamily protein | 16.858635377321 |
| AT5G35550_at | TT2 | TRANSPARENT TESTA 2 | Duplicated homeodomain-like superfamily protein | 16.904926464679 |
| AT1G10540_at | NAT8 | nucleobase-ascorbate transporter 8 | nucleobase-ascorbate transporter 8 | 16.97532749337 |
| AT5G09370_at | AT5G09370 | Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein | 17.987945029334 | |
| AT3G49270_at | AT3G49270 | extensin-like protein | 18.700634895122 | |
| AT1G04645_at | AT1G04645 | Plant self-incompatibility protein S1 family | 19.114361488387 | |
| AT2G42830_at | SHP2 | SHATTERPROOF 2 | K-box region and MADS-box transcription factor family protein | 21.096198665917 |
| AT2G30810_at | AT2G30810 | Gibberellin-regulated family protein | 21.326689705055 | |
| AT3G58780_at | SHP1 | SHATTERPROOF 1 | K-box region and MADS-box transcription factor family protein | 21.419271879772 |
| AT1G17260_at | AHA10 | autoinhibited H( )-ATPase isoform 10 | autoinhibited H[ ]-ATPase isoform 10 | 22.567869484851 |
| AT5G39220_at | AT5G39220 | alpha/beta-Hydrolases superfamily protein | 23.080929036406 | |
| AT1G09790_at | COBL6 | COBRA-like protein 6 precursor | COBRA-like protein 6 precursor | 23.34806718637 |
| AT4G21630_at | AT4G21630 | Subtilase family protein | 24.526561118701 | |
| AT4G17480_at | AT4G17480 | alpha/beta-Hydrolases superfamily protein | 25.030941091377 | |
| AT2G02515_at | AT2G02515 | hypothetical protein | 25.21031905489 | |
| AT5G53100_at | AT5G53100 | NAD(P)-binding Rossmann-fold superfamily protein | 25.78027806799 | |
| AT4G35725_at | AT4G35725 | transmembrane protein | 26.112030860725 | |
| AT1G05490_at | chr31 | chromatin remodeling 31 | chromatin remodeling 31 | 27.009885075946 |
| AT3G21840_at | SK7 | SKP1-like 7 | SKP1-like 7 | 27.111146829543 |
| AT1G34580_at | AT1G34580 | Major facilitator superfamily protein | 27.234589729165 | |
| AT4G29285_at | LCR24 | low-molecular-weight cysteine-rich 24 | low-molecular-weight cysteine-rich 24 | 27.462187575344 |
| AT1G49800_at | AT1G49800 | transmembrane protein | 28.387044924857 | |
| AT4G21480_at | STP12 | sugar transporter protein 12 | sugar transporter protein 12 | 29.005223820622 |
| AT4G24260_at | GH9A3 | glycosyl hydrolase 9A3 | glycosyl hydrolase 9A3 | 29.576147231375 |
| AT3G17600_at | IAA31 | indole-3-acetic acid inducible 31 | indole-3-acetic acid inducible 31 | 31.450936269388 |
| AT5G58782_at | cPT6 | cis-prenyltransferase 6 | Undecaprenyl pyrophosphate synthetase family protein | 31.677569717914 |
| AT1G09370_at | AT1G09370 | Plant invertase/pectin methylesterase inhibitor superfamily protein | 31.79329743631 | |
| AT3G17150_at | AT3G17150 | Plant invertase/pectin methylesterase inhibitor superfamily protein | 32.766374668488 | |
| AT1G65480_at | FT | FLOWERING LOCUS T | PEBP (phosphatidylethanolamine-binding protein) family protein | 33.319938921482 |
| AT2G39640_at | AT2G39640 | glycosyl hydrolase family 17 protein | 33.967049746846 | |
| AT3G13370_at | AT3G13370 | formin-like protein | 35.797476492807 | |
| AT5G51810_at | GA20OX2 | gibberellin 20 oxidase 2 | gibberellin 20 oxidase 2 | 36.825524391224 |
| AT5G65710_at | HSL2 | HAESA-like 2 | HAESA-like 2 | 36.981756811058 |
| AT3G17152_at | AT3G17152 | Plant invertase/pectin methylesterase inhibitor superfamily protein | 38.213292614321 | |
| AT3G19550_at | AT3G19550 | glutamate racemase | 41.104556778912 | |
| AT1G02940_at | GSTF5 | glutathione S-transferase (class phi) 5 | glutathione S-transferase (class phi) 5 | 42.519328136302 |
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