TissueCFM001541'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 |
|---|---|---|
| Purine metabolism | 0.00350237 | KEGG pathway |
| nucleotide-excision repair, DNA gap filling | 0.005718605 | GO:0006297 |
| GTP biosynthetic process | 0.005718605 | GO:0006183 |
| S-adenosylmethionine cycle | 0.005718605 | GO:0033353 |
| DNA replication proofreading | 0.005718605 | GO:0045004 |
| CTP biosynthetic process | 0.005718605 | GO:0006241 |
| base-excision repair, gap-filling | 0.005718605 | GO:0006287 |
| nucleoside diphosphate phosphorylation | 0.005718605 | GO:0006165 |
| UTP biosynthetic process | 0.005718605 | GO:0006228 |
| 'de novo' UMP biosynthetic process | 0.005718605 | GO:0044205 |
| phosphopyruvate hydratase complex | 0.006080662 | GO:0000015 |
| delta DNA polymerase complex | 0.006080662 | GO:0043625 |
| adenosylhomocysteinase activity | 0.006177189 | GO:0004013 |
| orotate phosphoribosyltransferase activity | 0.006177189 | GO:0004588 |
| 3'-5'-exodeoxyribonuclease activity | 0.006177189 | GO:0008296 |
| orotidine-5'-phosphate decarboxylase activity | 0.006177189 | GO:0004590 |
| phosphopyruvate hydratase activity | 0.006177189 | GO:0004634 |
| nucleoside diphosphate kinase activity | 0.008577907 | GO:0004550 |
| core promoter sequence-specific DNA binding | 0.010291664 | GO:0001046 |
| 'de novo' pyrimidine nucleobase biosynthetic process | 0.011316816 | GO:0006207 |
| one-carbon metabolic process | 0.014024136 | GO:0006730 |
| S-adenosyl-L-methionine cycle II | 0.015365289 | plantCyc |
| adenosine deoxyribonucleotides de novo biosynthesis | 0.015365289 | plantCyc |
| CMP phosphorylation | 0.015365289 | plantCyc |
| guanosine deoxyribonucleotides de novo biosynthesis I | 0.015365289 | plantCyc |
| guanosine ribonucleotides de novo biosynthesis | 0.015365289 | plantCyc |
| L-methionine degradation I (to L-homocysteine) | 0.015365289 | plantCyc |
| purine deoxyribonucleosides salvage | 0.015365289 | plantCyc |
| pyrimidine deoxyribonucleotide phosphorylation | 0.015365289 | plantCyc |
| pyrimidine deoxyribonucleotides de novo biosynthesis II | 0.015365289 | plantCyc |
| superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis (E. coli) | 0.015365289 | plantCyc |
| UMP biosynthesis I | 0.015365289 | plantCyc |
| Transcription_related, Transcription factor: bHLH | 0.016638898 | TF family |
| UTP and CTP de novo biosynthesis | 0.017330587 | plantCyc |
| pyrimidine deoxyribonucleotides de novo biosynthesis I | 0.018991938 | plantCyc |
| DNA biosynthetic process | 0.019760102 | GO:0071897 |
| transcription from RNA polymerase II promoter | 0.019760102 | GO:0006366 |
| transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding | 0.021850404 | GO:0001228 |
| Cysteine and methionine metabolism | 0.02404846 | KEGG pathway |
| Pyrimidine metabolism | 0.02404846 | KEGG pathway |
| DNA-directed DNA polymerase activity | 0.026263637 | GO:0003887 |
| glycolytic process | 0.027127155 | GO:0006096 |
| cytosol | 0.029471729 | GO:0005829 |
| Rubisco shunt | 0.031516097 | plantCyc |
| glycolysis IV (plant cytosol) | 0.035655728 | plantCyc |
| pyrimidine ribonucleotides interconversion | 0.035655728 | plantCyc |
| gluconeogenesis I | 0.038114194 | plantCyc |
| glycolysis I (from glucose 6-phosphate) | 0.0381464 | plantCyc |
| nucleic acid phosphodiester bond hydrolysis | 0.040973708 | GO:0090305 |
Module member annotation
| Gene ID | Ortholog in Arabidopsis (Blast E-value) | Annotation in Arabidopsis |
|---|---|---|
| CRO_T003596 | AT2G20530 (1.00E-104) | ATPHB6|prohibitin 6 |
| CRO_T004901 | AT4G34530 (7.00E-13) | CIB1|cryptochrome-interacting basic-helix-loop-helix 1 |
| CRO_T006254 | AT2G36530 (0) | ENO2|ENOLASE 2; LOS2|LOW EXPRESSION OF OSMOTICALLY RESPONSIVE GENES 2 |
| CRO_T012743 | AT3G54470 (0) | uridine 5'-monophosphate synthase / UMP synthase (PYRE-F) (UMPS) |
| CRO_T015321 | AT3G23810 (0) | ATSAHH2|S-ADENOSYL-L-HOMOCYSTEINE (SAH) HYDROLASE 2 |
| CRO_T027431 | AT5G63960 (3.00E-151) | DNA binding; nucleotide binding; nucleic acid binding; DNA-directed DNA polymerases; DNA-directed DNA polymerases |
| CRO_T029260 | AT1G17410 (1.00E-13) | Nucleoside diphosphate kinase family protein |
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 |
| TissueCFM001492 | [myelin basic protein]-arginine N-methyltransferase activity 3'-5'-exodeoxyribonuclease activity protein-arginine omega-N monomethyltransferase activity nucleotide-excision repair, DNA gap filling DNA replication proofreading base-excision repair, gap-filling delta DNA polymerase complex oligosaccharyltransferase complex protein-arginine omega-N asymmetric methyltransferase activity histone-arginine N-methyltransferase activity peptidyl-arginine methylation, to asymmetrical-dimethyl arginine histone arginine methylation FoxO signaling pathway protein N-linked glycosylation DNA-directed DNA polymerase activity DNA binding DNA recombination DNA biosynthetic process vegetative to reproductive phase transition of meristem DNA replication N-Glycan biosynthesis DNA repair 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 |
| 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 |
| TissueCFM001740 | putrescine biosynthetic process cleavage in ITS2 between 5.8S rRNA and LSU-rRNA of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) phosphopyruvate hydratase activity protein-arginine deiminase activity agmatine deiminase activity polynucleotide 5'-hydroxyl-kinase activity phosphopyruvate hydratase complex Ubiquitin_Proteasome_system, E3 adaptor: BTB putrescine biosynthesis II Arginine and proline metabolism gluconeogenesis I glycolysis I (from glucose 6-phosphate) glycolysis IV (plant cytosol) Rubisco shunt glycolytic process | details |
| TissueCFM001741 | DNA replication proofreading nucleotide-excision repair, DNA gap filling base-excision repair, gap-filling response to high light intensity 3'-5'-exodeoxyribonuclease activity delta DNA polymerase complex oligosaccharyltransferase complex protein N-linked glycosylation response to hydrogen peroxide 5S rRNA binding response to heat DNA biosynthetic process DNA-directed DNA polymerase activity nucleic acid phosphodiester bond hydrolysis | details |
Expression profiles
 Show details about module gene expression profiling |