TissueCFM001560'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 |
|---|---|---|
| S-adenosyl-L-methionine cycle II | 0.002835077 | plantCyc |
| L-methionine degradation I (to L-homocysteine) | 0.002835077 | plantCyc |
| Spliceosome | 0.003744259 | KEGG pathway |
| S-adenosylmethionine cycle | 0.008581433 | GO:0033353 |
| adenosylhomocysteinase activity | 0.010280159 | GO:0004013 |
| positive regulation of proteasomal protein catabolic process | 0.012854853 | GO:1901800 |
| spliceosomal complex assembly | 0.012854853 | GO:0000245 |
| one-carbon metabolic process | 0.012854853 | GO:0006730 |
| positive regulation of RNA polymerase II transcriptional preinitiation complex assembly | 0.012854853 | GO:0045899 |
| ER-associated ubiquitin-dependent protein catabolic process | 0.013563399 | GO:0030433 |
| post-mRNA release spliceosomal complex | 0.014383757 | GO:0071014 |
| nuclear proteasome complex | 0.014383757 | GO:0031595 |
| Prp19 complex | 0.014383757 | GO:0000974 |
| prespliceosome | 0.014383757 | GO:0071010 |
| cytosolic proteasome complex | 0.014383757 | GO:0031597 |
| catalytic step 1 spliceosome | 0.014383757 | GO:0071012 |
| proteasome regulatory particle, base subcomplex | 0.016805229 | GO:0008540 |
| Cysteine and methionine metabolism | 0.019846156 | KEGG pathway |
| Proteasome | 0.019846156 | KEGG pathway |
| precatalytic spliceosome | 0.020573636 | GO:0071011 |
| TBP-class protein binding | 0.022248349 | GO:0017025 |
| proteasome-activating ATPase activity | 0.022248349 | GO:0036402 |
| catalytic step 2 spliceosome | 0.027835255 | GO:0071013 |
| isomerase activity | 0.040959356 | GO:0016853 |
| amino acid binding | 0.040959356 | GO:0016597 |
Module member annotation
| Gene ID | Ortholog in Arabidopsis (Blast E-value) | Annotation in Arabidopsis |
|---|---|---|
| CRO_T001023 | AT5G47420 (6.00E-109) | Tryptophan RNA-binding attenuator protein-like |
| CRO_T008121 | AT1G33060 (6.00E-101) | ANAC014|NAC 014 |
| CRO_T015321 | AT3G23810 (0) | ATSAHH2|S-ADENOSYL-L-HOMOCYSTEINE (SAH) HYDROLASE 2 |
| CRO_T015410 | AT2G20140 (0) | RPT2b|regulatory particle AAA-ATPase 2b |
| CRO_T016396 | - | - |
| CRO_T016719 | - | - |
| CRO_T024838 | AT5G25320 (2.00E-123) | ACT-like superfamily protein |
| CRO_T026992 | - | - |
Direct connection functional modules
| Module ID | Function Annotation | Overlap condition |
|---|---|---|
| TissueCFM000441 | Pyrimidine metabolism uridylate kinase activity cytidylate kinase activity transcription factor activity, transcription factor binding NAD-dependent protein deacetylase activity NAD+ binding protein deacetylation CMP phosphorylation pyrimidine deoxyribonucleotide phosphorylation UTP and CTP de novo biosynthesis photomorphogenesis protein ADP-ribosylation pyrimidine nucleotide biosynthetic process 'de novo' pyrimidine nucleobase biosynthetic process nucleotide phosphorylation Transcription_related, Transcription factor: B3 Transcription_related, Transcription factor: Orphans pyrimidine ribonucleotides interconversion zinc ion binding amino acid binding | details |
| TissueCFM000615 | Carbon metabolism L-serine biosynthetic process L-serine biosynthesis gluconeogenesis I glycolysis I (from glucose 6-phosphate) glycolytic process Phenylpropanoid biosynthesis formation of glycosidic bonds, GlycosylTransferases: GTnc L-tryptophan degradation VI (via tryptamine) Protein_kinases_phosphatases, PPC:1.6.2: Plant External Response Like Kinase pyridoxal phosphate binding adenosylhomocysteinase activity glucose-6-phosphate isomerase activity phosphoglycerate dehydrogenase activity aromatic-L-amino-acid decarboxylase activity phosphopyruvate hydratase activity O-phospho-L-serine:2-oxoglutarate aminotransferase activity phosphatidate cytidylyltransferase activity vomilenine glucosyltransferase activity tryptophan synthase activity raucaffricine beta-glucosidase activity S-adenosyl-L-methionine cycle II CDP-diacylglycerol biosynthesis II L-methionine degradation I (to L-homocysteine) strictosidine beta-glucosidase activity S-adenosylmethionine cycle starch metabolic process phosphatidylglycerol biosynthetic process glucosinolate catabolic process CDP-diacylglycerol biosynthetic process | details |
| TissueCFM001394 | Proteasome proteasome regulatory particle, base subcomplex Transcription_related, Transcription factor: Trihelix oxidation-reduction process regulation of calcium or calmodulin-mediated signal transduction in response to host modulation by symbiont of host calcium or calmodulin-mediated signal transduction detection of calcium ion snRNA transcription calcium-mediated signaling proteasome assembly regulation of photomorphogenesis positive regulation of RNA polymerase II transcriptional preinitiation complex assembly positive regulation of proteasomal protein catabolic process glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity Rab GDP-dissociation inhibitor activity polyubiquitin binding maturation of LSU-rRNA glucose metabolic process L-ascorbate peroxidase activity nuclear proteasome complex cytosolic proteasome complex ER-associated ubiquitin-dependent protein catabolic process ascorbate glutathione cycle L-ascorbate degradation V | details |
| TissueCFM001415 | glycolysis IV (plant cytosol) Transcription_related, Transcription factor: Trihelix prespliceosome catalytic step 1 spliceosome post-mRNA release spliceosomal complex Prp19 complex glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity diphosphate-fructose-6-phosphate 1-phosphotransferase activity maturation of LSU-rRNA glycolytic process through fructose-6-phosphate spliceosomal complex assembly glucose metabolic process carbohydrate phosphorylation precatalytic spliceosome gluconeogenesis I glycolysis I (from glucose 6-phosphate) sucrose biosynthesis I (from photosynthesis) translational elongation cytoplasm catalytic step 2 spliceosome 6-phosphofructokinase activity nucleotidyltransferase activity translation elongation factor activity cytosolic large ribosomal subunit | details |
| TissueCFM001489 | Ubiquitin_Proteasome_system, DUB: JAMM ELL-EAF complex signal recognition particle binding 7S RNA binding endoplasmic reticulum signal peptide binding signal recognition particle, endoplasmic reticulum targeting transition metal ion binding amino acid binding translation elongation factor activity eukaryotic 43S preinitiation complex eukaryotic 48S preinitiation complex eukaryotic translation initiation factor 3 complex Protein export SRP-dependent cotranslational protein targeting to membrane formation of translation preinitiation complex translational elongation cellular transition metal ion homeostasis metal ion transport translation initiation factor activity RNA transport | details |
| TissueCFM001529 | ER-associated ubiquitin-dependent protein catabolic process Ubiquitin_Proteasome_system, E3: RING threonyl-tRNA aminoacylation retrograde protein transport, ER to cytosol positive regulation of RNA polymerase II transcriptional preinitiation complex assembly cullin deneddylation positive regulation of proteasomal protein catabolic process threonine-tRNA ligase activity endoplasmic reticulum lumen nuclear proteasome complex cytosolic proteasome complex proteasome regulatory particle, base subcomplex proteasome complex TBP-class protein binding proteasome-activating ATPase activity response to salt stress zinc ion binding Aminoacyl-tRNA biosynthesis Proteasome proteasome-mediated ubiquitin-dependent protein catabolic process | details |
| TissueCFM001541 | Purine metabolism nucleotide-excision repair, DNA gap filling GTP biosynthetic process S-adenosylmethionine cycle DNA replication proofreading CTP biosynthetic process base-excision repair, gap-filling nucleoside diphosphate phosphorylation UTP biosynthetic process 'de novo' UMP biosynthetic process phosphopyruvate hydratase complex delta DNA polymerase complex adenosylhomocysteinase activity orotate phosphoribosyltransferase activity 3'-5'-exodeoxyribonuclease activity orotidine-5'-phosphate decarboxylase activity phosphopyruvate hydratase activity nucleoside diphosphate kinase activity core promoter sequence-specific DNA binding 'de novo' pyrimidine nucleobase biosynthetic process one-carbon metabolic process S-adenosyl-L-methionine cycle II adenosine deoxyribonucleotides de novo biosynthesis CMP phosphorylation guanosine deoxyribonucleotides de novo biosynthesis I guanosine ribonucleotides de novo biosynthesis L-methionine degradation I (to L-homocysteine) purine deoxyribonucleosides salvage pyrimidine deoxyribonucleotide phosphorylation pyrimidine deoxyribonucleotides de novo biosynthesis II superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis (E. coli) UMP biosynthesis I Transcription_related, Transcription factor: bHLH UTP and CTP de novo biosynthesis pyrimidine deoxyribonucleotides de novo biosynthesis I DNA biosynthetic process transcription from RNA polymerase II promoter transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding Cysteine and methionine metabolism Pyrimidine metabolism DNA-directed DNA polymerase activity glycolytic process cytosol Rubisco shunt glycolysis IV (plant cytosol) pyrimidine ribonucleotides interconversion gluconeogenesis I glycolysis I (from glucose 6-phosphate) nucleic acid phosphodiester bond hydrolysis | details |
| TissueCFM001574 | S-adenosylmethionine cycle nuclear proteasome complex proteasome regulatory particle, base subcomplex cytosolic proteasome complex adenosylhomocysteinase activity S-adenosyl-L-methionine cycle II L-methionine degradation I (to L-homocysteine) positive regulation of RNA polymerase II transcriptional preinitiation complex assembly positive regulation of proteasomal protein catabolic process one-carbon metabolic process ER-associated ubiquitin-dependent protein catabolic process TCA cycle II (plants and fungi) TBP-class protein binding proteasome-activating ATPase activity aerobic respiration I (cytochrome c) aerobic respiration III (alternative oxidase pathway) Cysteine and methionine metabolism Proteasome protein dephosphorylation protein serine/threonine phosphatase activity | details |
| TissueCFM001762 | ER-associated ubiquitin-dependent protein catabolic process retrograde protein transport, ER to cytosol glucose catabolic process positive regulation of proteasomal protein catabolic process positive regulation of RNA polymerase II transcriptional preinitiation complex assembly nuclear proteasome complex cytosolic proteasome complex endoplasmic reticulum lumen phosphoglycerate mutase activity folic acid binding proteasome regulatory particle, base subcomplex proteasome-activating ATPase activity TBP-class protein binding gluconeogenesis I glycolysis I (from glucose 6-phosphate) glycolysis IV (plant cytosol) Rubisco shunt glycolytic process manganese ion binding response to salt stress helicase activity | details |
Expression profiles
 Show details about module gene expression profiling |