TreatCFM002030's detailed annotation
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Protein: Yellow color--query protein Green color--interaction proteins. Interaction line: Pink--proteins own interaction and positive co-expression relationship with target protein Blue--proteins own interaction and negative co-expression relationship with target protein Orange--proteins own interaction and protein-protein relationship with target protein |
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Module annotation (GSEA enrichment result)
| Function Annotation | FDR | Gene Ontolog |
|---|---|---|
| nuclear-transcribed mRNA catabolic process | 0.004048762 | GO:0000956 |
| large ribosomal subunit rRNA binding | 0.01624335 | GO:0070180 |
| acetaldehyde biosynthesis I | 0.017037374 | plantCyc |
| detoxification of reactive carbonyls in chloroplasts | 0.017037374 | plantCyc |
| farnesylcysteine salvage pathway | 0.017037374 | plantCyc |
| geraniol and geranial biosynthesis | 0.017037374 | plantCyc |
| mannitol degradation II | 0.017037374 | plantCyc |
| pyruvate fermentation to ethanol II | 0.017037374 | plantCyc |
| traumatin and (Z)-3-hexen-1-yl acetate biosynthesis | 0.017037374 | plantCyc |
| ribosomal large subunit assembly | 0.018857962 | GO:0000027 |
| cytoplasmic translation | 0.018857962 | GO:0002181 |
| rRNA processing | 0.020690202 | GO:0006364 |
| preribosome, large subunit precursor | 0.024339834 | GO:0030687 |
| Phenylpropanoid biosynthesis | 0.032611505 | KEGG pathway |
| cytosolic large ribosomal subunit | 0.038032504 | GO:0022625 |
| nucleolus | 0.038032504 | GO:0005730 |
| Spliceosome | 0.04413962 | KEGG pathway |
| Transcription_related, Transcription factor: ERF | 0.045526243 | TF family |
| Transcription_related, Transcription factor: MYB | 0.045526243 | TF family |
Module member annotation
| Gene ID | Ortholog in Arabidopsis (Blast E-value) | Annotation in Arabidopsis |
|---|---|---|
| CRO_T009019 | AT1G25260 (3.00E-92) | Ribosomal protein L10 family protein |
| CRO_T015615 | AT1G72680 (7.00E-127) | ATCAD1|CINNAMYL ALCOHOL DEHYDROGENASE 1; CAD1|cinnamyl-alcohol dehydrogenase |
| CRO_T017600 | AT4G32551 (3.00E-19) | LUG|LEUNIG; RON2|ROTUNDA 2 |
| CRO_T020242 | AT3G16770 (9.00E-15) | ATEBP|ethylene-responsive element binding protein; ERF72|ETHYLENE RESPONSE FACTOR 72; RAP2.3|RELATED TO AP2 3 |
| CRO_T021234 | AT3G47600 (2.00E-83) | ATMYB94|myb domain protein 94 |
| CRO_T024726 | AT5G41620 (5.00E-73) | unknown protein |
Direct connection functional modules
| Module ID | Function Annotation | Overlap condition |
|---|---|---|
| TreatCFM000295 | nuclear-transcribed mRNA catabolic process large ribosomal subunit rRNA binding cytoplasmic translation ribosomal large subunit assembly rRNA processing Transcription_related, Transcription factor: C2C2-Dof Transcription_related, Transcription factor: MYB-related preribosome, large subunit precursor Transcription_related, Transcription factor: C2H2 cytosolic large ribosomal subunit nucleolus | details |
| TreatCFM000744 | chlorophyll(ide) b reductase activity chlorophyll cycle Glucagon signaling pathway PSII associated light-harvesting complex II catabolic process chlorophyll catabolic process phosphoprotein phosphatase activity Transcription_related, Transcription regulator: GNAT Porphyrin and chlorophyll metabolism protein dephosphorylation | details |
| TreatCFM001083 | protein homodimerization activity transport of virus in host, tissue to tissue protein-phycocyanobilin linkage cellular response to virus entrainment of circadian clock proteasome assembly gametophyte development regulation of cell division plastid organization shikimate metabolic process response to reactive oxygen species photoreceptor activity shikimate kinase activity [ribulose-bisphosphate carboxylase]-lysine N-methyltransferase activity proteasome regulatory particle, lid subcomplex chloroplast fission aromatic amino acid family biosynthetic process peptidyl-lysine monomethylation DNA-templated transcription, initiation response to UV-B Glucagon signaling pathway phenylpropanoids methylation (ice plant) syringetin biosynthesis chloroplast outer membrane chromatin 11-O-demethyl-17-O-deacetylvindoline O-methyltransferase activity myricetin 3'-O-methyltransferase activity protein-lysine N-methyltransferase activity alkaloid biosynthetic process structural molecule activity aromatic compound biosynthetic process | details |
| TreatCFM001241 | proteasome regulatory particle, lid subcomplex cuticle development proteasome assembly plastid organization shikimate metabolic process aromatic amino acid family biosynthetic process Transcription_related, Transcription factor: C2C2-Dof DNA-3-methyladenine glycosylase activity shikimate kinase activity base-excision repair structural molecule activity rRNA processing Base excision repair Proteasome ubiquitin-dependent protein catabolic process | details |
| TreatCFM001257 | Indole alkaloid biosynthesis acetaldehyde biosynthesis I ajmaline and sarpagine biosynthesis detoxification of reactive carbonyls in chloroplasts farnesylcysteine salvage pathway geraniol and geranial biosynthesis mannitol degradation II pyruvate fermentation to ethanol II scopoletin biosynthesis traumatin and (Z)-3-hexen-1-yl acetate biosynthesis vindoline and vinblastine biosynthesis Phenylpropanoid biosynthesis | details |
| TreatCFM001406 | UDP-N-acetyl-D-glucosamine biosynthesis II glucosamine 6-phosphate N-acetyltransferase activity Ribosome Protein_kinases_phosphatases, PPC:4.1.1: MAP3K Transcription_related, Transcription regulator: GNAT structural constituent of ribosome UDP-N-acetylglucosamine biosynthetic process ribosomal small subunit biogenesis maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) MAP kinase kinase kinase activity poly(A) RNA binding cis-Golgi network 90S preribosome activation of MAPKK activity cytoplasmic translation MAPK cascade ER to Golgi vesicle-mediated transport rRNA processing SNARE interactions in vesicular transport protein transport Transcription_related, Transcription factor: ERF protein binding Amino sugar and nucleotide sugar metabolism MAPK signaling pathway - plant cytosolic small ribosomal subunit Golgi membrane small-subunit processome | details |
| TreatCFM001439 | Alanine, aspartate and glutamate metabolism nuclear-transcribed mRNA catabolic process formation of glycosidic bonds, GlycosylTransferases: GTnc hydrolysis and/or rearrangement of glycosidic bonds, Glycoside Hydrolases: GHnc Glycerolipid metabolism hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds large ribosomal subunit rRNA binding nitrogen compound metabolic process glycosyl compound metabolic process ribosomal large subunit assembly cytoplasmic translation rRNA processing beta-glucosidase activity | details |
| TreatCFM001440 | hydrolysis and/or rearrangement of glycosidic bonds, Glycoside Hydrolases: GHnc glycosyl compound metabolic process Glycerolipid metabolism beta-glucosidase activity nuclear-transcribed mRNA catabolic process Alanine, aspartate and glutamate metabolism carbohydrate metabolic process hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds large ribosomal subunit rRNA binding cytoplasmic translation nitrogen compound metabolic process ribosomal large subunit assembly rRNA processing transferase activity, transferring acyl groups | details |
| TreatCFM001613 | hydrolysis and/or rearrangement of glycosidic bonds, Glycoside Hydrolases: GHnc Protein_kinases_phosphatases, PPC:4.5.4: GSK3/Shaggy Like Protein Kinase Family ErbB signaling pathway trans, trans-farnesyl diphosphate biosynthesis methylerythritol phosphate pathway I methylerythritol phosphate pathway II mevalonate pathway I cytosol nuclear-transcribed mRNA catabolic process peptidyl-diphthamide biosynthetic process from peptidyl-histidine positive regulation of ubiquitin-protein transferase activity regulation of mitotic cell cycle ubiquitin-like protein binding cullin family protein binding diphthine synthase activity SUMO activating enzyme activity protein neddylation histone acetyltransferase activity ubiquitin conjugating enzyme binding large ribosomal subunit rRNA binding lipase activity protein sumoylation Ubiquitin mediated proteolysis histone acetylation ribosomal large subunit assembly cytoplasmic translation | details |
| TreatCFM001614 | ncRNA metabolic process nuclear-transcribed mRNA catabolic process mRNA catabolic process rRNA modification large ribosomal subunit rRNA binding lipase activity snoRNA binding nuclease activity Ribosome biogenesis in eukaryotes ribosomal large subunit assembly cytoplasmic translation box C/D snoRNP complex macromolecular complex rRNA processing lipid metabolic process preribosome, large subunit precursor | details |
| TreatCFM001919 | Protein_kinases_phosphatases, PPC:4.5.2: CDC2 Like Kinase Family acetaldehyde biosynthesis I detoxification of reactive carbonyls in chloroplasts farnesylcysteine salvage pathway geraniol and geranial biosynthesis mannitol degradation II pyruvate fermentation to ethanol II traumatin and (Z)-3-hexen-1-yl acetate biosynthesis Transcription_related, Transcription factor: bHLH Phenylpropanoid biosynthesis | details |
| TreatCFM002046 | protein kinase activity Protein_kinases_phosphatases, PPC:4.5.2: CDC2 Like Kinase Family acetaldehyde biosynthesis I detoxification of reactive carbonyls in chloroplasts farnesylcysteine salvage pathway geraniol and geranial biosynthesis mannitol degradation II pyruvate fermentation to ethanol II traumatin and (Z)-3-hexen-1-yl acetate biosynthesis Phenylpropanoid biosynthesis | details |
| TreatCFM002155 | Cytochrome_P450, Cytochrome P450: CYP73A Degradation of aromatic compounds trans-cinnamate 4-monooxygenase activity phenylpropanoid biosynthesis, initial reactions phenylalanine ammonia-lyase activity lignin metabolic process protein N-glycosylation (eukaryotic, high mannose) anion transport suberin monomers biosynthesis transmembrane transporter activity cysteine-type endopeptidase activity extracellular space Lysosome integral component of membrane vacuolar membrane | details |
| TreatCFM002165 | formation of glycosidic bonds, GlycosylTransferases: GTnc RNA splicing RNA modification acetaldehyde biosynthesis I detoxification of reactive carbonyls in chloroplasts farnesylcysteine salvage pathway geraniol and geranial biosynthesis mannitol degradation II pyruvate fermentation to ethanol II traumatin and (Z)-3-hexen-1-yl acetate biosynthesis response to stress Phenylpropanoid biosynthesis | details |
| TreatCFM002174 | acetaldehyde biosynthesis I detoxification of reactive carbonyls in chloroplasts farnesylcysteine salvage pathway geraniol and geranial biosynthesis mannitol degradation II pyruvate fermentation to ethanol II traumatin and (Z)-3-hexen-1-yl acetate biosynthesis DNA replication response to stress Phenylpropanoid biosynthesis | details |
Expression profiles
 Show details about module gene expression profiling |