TissueCFM001574'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-adenosylmethionine cycle | 0.005213151 | GO:0033353 |
| nuclear proteasome complex | 0.007381159 | GO:0031595 |
| proteasome regulatory particle, base subcomplex | 0.007381159 | GO:0008540 |
| cytosolic proteasome complex | 0.007381159 | GO:0031597 |
| adenosylhomocysteinase activity | 0.007710803 | GO:0004013 |
| S-adenosyl-L-methionine cycle II | 0.008093936 | plantCyc |
| L-methionine degradation I (to L-homocysteine) | 0.008093936 | plantCyc |
| positive regulation of RNA polymerase II transcriptional preinitiation complex assembly | 0.008683451 | GO:0045899 |
| positive regulation of proteasomal protein catabolic process | 0.008683451 | GO:1901800 |
| one-carbon metabolic process | 0.009765273 | GO:0006730 |
| ER-associated ubiquitin-dependent protein catabolic process | 0.009892553 | GO:0030433 |
| TCA cycle II (plants and fungi) | 0.016168745 | plantCyc |
| TBP-class protein binding | 0.016693165 | GO:0017025 |
| proteasome-activating ATPase activity | 0.016693165 | GO:0036402 |
| aerobic respiration I (cytochrome c) | 0.017759359 | plantCyc |
| aerobic respiration III (alternative oxidase pathway) | 0.017759359 | plantCyc |
| Cysteine and methionine metabolism | 0.022357933 | KEGG pathway |
| Proteasome | 0.022357933 | KEGG pathway |
| protein dephosphorylation | 0.037987655 | GO:0006470 |
| protein serine/threonine phosphatase activity | 0.048978727 | GO:0004722 |
Module member annotation
| Gene ID | Ortholog in Arabidopsis (Blast E-value) | Annotation in Arabidopsis |
|---|---|---|
| CRO_T009766 | AT4G33690 (2.00E-36) | unknown protein |
| CRO_T012507 | AT5G10740 (4.00E-33) | Protein phosphatase 2C family protein |
| CRO_T015321 | AT3G23810 (0) | ATSAHH2|S-ADENOSYL-L-HOMOCYSTEINE (SAH) HYDROLASE 2 |
| CRO_T015410 | AT2G20140 (0) | RPT2b|regulatory particle AAA-ATPase 2b |
| CRO_T016719 | - | - |
| CRO_T028469 | AT1G08480 (2.00E-49) | SDH6|succinate dehydrogenase 6 |
Direct connection functional modules
| Module ID | Function Annotation | Overlap condition |
|---|---|---|
| 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 |
| TissueCFM000900 | RNA binding Spliceosome triacylglycerol degradation oxidized purine nucleobase lesion DNA N-glycosylase activity nuclear exosome (RNase complex) U4/U6 x U5 tri-snRNP complex box C/D snoRNP complex maturation of SSU-rRNA maturation of LSU-rRNA tRNA processing translation precatalytic spliceosome rRNA processing RNA secondary structure unwinding mRNA splicing, via spliceosome Ribosome biogenesis in eukaryotes RNA degradation DNA repair | 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 |
| 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 |
| TissueCFM001560 | S-adenosyl-L-methionine cycle II L-methionine degradation I (to L-homocysteine) Spliceosome S-adenosylmethionine cycle adenosylhomocysteinase activity positive regulation of proteasomal protein catabolic process spliceosomal complex assembly one-carbon metabolic process positive regulation of RNA polymerase II transcriptional preinitiation complex assembly ER-associated ubiquitin-dependent protein catabolic process post-mRNA release spliceosomal complex nuclear proteasome complex Prp19 complex prespliceosome cytosolic proteasome complex catalytic step 1 spliceosome proteasome regulatory particle, base subcomplex Cysteine and methionine metabolism Proteasome precatalytic spliceosome TBP-class protein binding proteasome-activating ATPase activity catalytic step 2 spliceosome isomerase activity amino acid binding | details |
| TissueCFM001565 | GDP-mannose biosynthesis L-ascorbate biosynthesis I (L-galactose pathway) Legionellosis nucleocytoplasmic transport response to endoplasmic reticulum stress glutathione transferase activity Ran GTPase binding protein serine/threonine phosphatase activity nucleotidyltransferase activity protein transporter activity translation elongation factor activity protein disulfide isomerase activity Fructose and mannose metabolism | details |
| TissueCFM001591 | Chagas disease (American trypanosomiasis) serine-type exopeptidase activity chloroplast organization iron-sulfur cluster assembly iron-sulfur cluster binding response to stress | 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 |