TissueCFM001036'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 |
| This network produced by cytoscapeweb |
Module annotation (GSEA enrichment result)
| Function Annotation | FDR | Gene Ontolog |
|---|---|---|
| pyrimidine nucleobases salvage I | 0.00410222 | plantCyc |
| superpathway of pyrimidine nucleobases salvage | 0.00410222 | plantCyc |
| superpathway of pyrimidine ribonucleosides salvage | 0.00410222 | plantCyc |
| Cytochrome_P450, Cytochrome P450: CYP94D | 0.004874734 | CYP450 family |
| barrier septum site selection | 0.006725349 | GO:0000918 |
| formate catabolic process | 0.006725349 | GO:0042183 |
| uracil salvage | 0.006725349 | GO:0006223 |
| serine family amino acid biosynthetic process | 0.006725349 | GO:0009070 |
| pyrimidine salvage pathway | 0.009830939 | plantCyc |
| formate dehydrogenase (NAD+) activity | 0.010655254 | GO:0008863 |
| uracil phosphoribosyltransferase activity | 0.010655254 | GO:0004845 |
| calcium-dependent ATPase activity | 0.010655254 | GO:0030899 |
| UMP biosynthetic process | 0.010757697 | GO:0006222 |
| Transcription_related, Transcription factor: OFP | 0.012976839 | TF family |
| pyrimidine nucleoside salvage | 0.015682051 | GO:0043097 |
| phosphoglycerate dehydrogenase activity | 0.01597863 | GO:0004617 |
| chloroplast fission | 0.019194852 | GO:0010020 |
| Wnt signaling pathway | 0.020149236 | KEGG pathway |
| uridine kinase activity | 0.023952014 | GO:0004849 |
| aromatase activity | 0.023952014 | GO:0070330 |
| ubiquitin binding | 0.025085915 | GO:0043130 |
| regulation of cell shape | 0.026844226 | GO:0008360 |
| Pyrimidine metabolism | 0.028315237 | KEGG pathway |
| Ras signaling pathway | 0.028315237 | KEGG pathway |
| Endocytosis | 0.032187388 | KEGG pathway |
| Transcription_related, Transcription factor: M-type | 0.033852137 | TF family |
Module member annotation
| Gene ID | Ortholog in Arabidopsis (Blast E-value) | Annotation in Arabidopsis |
|---|---|---|
| CRO_T003800 | AT2G42160 (7.00E-27) | BRIZ1|BRAP2 RING ZnF UBP domain-containing protein 1 |
| CRO_T008351 | AT5G24020 (2.00E-131) | ARC11|ACCUMULATION AND REPLICATION OF CHLOROPLASTS 11 |
| CRO_T008385 | - | - |
| CRO_T018080 | AT5G43320 (3.00E-35) | ckl8|casein kinase I-like 8 |
| CRO_T018942 | AT5G62570 (2.00E-49) | CBP60a|calmodulin-binding protein 60a |
| CRO_T021123 | AT3G27440 (1.00E-18) | UKL5|uridine kinase-like 5 |
| CRO_T024290 | AT1G63710 (2.00E-101) | CYP86A7|cytochrome P450, family 86, subfamily A, polypeptide 7 |
| CRO_T024872 | AT2G18500 (1.00E-19) | ATOFP7|OVATE FAMILY PROTEIN 7 |
| CRO_T025028 | AT1G77980 (1.00E-19) | AGL66|AGAMOUS-like 66 |
| CRO_T025948 | AT3G19480 (1.00E-22) | PGDH3|phosphoglycerate dehydrogenase 3 |
Direct connection functional modules
| Module ID | Function Annotation | Overlap condition |
|---|---|---|
| TissueCFM000352 | serine family amino acid biosynthetic process formate catabolic process Hedgehog signaling pathway transferase activity, transferring phosphorus-containing groups phosphoglycerate dehydrogenase activity formate dehydrogenase (NAD+) activity Transcription_related, Transcription factor: NF-YC Transcription_related, Transcription factor: Orphans Ubiquitin_Proteasome_system, E3 adaptor: BTB signal transduction NAD binding protein heterodimerization activity | details |
| TissueCFM000589 | Cytochrome_P450, Cytochrome P450: CYP94D extended VTC2 cycle pyrimidine nucleobases salvage I superpathway of pyrimidine nucleobases salvage superpathway of pyrimidine ribonucleosides salvage VTC2 cycle endoplasmic reticulum tubular network organization intracellular protein transport barrier septum site selection uracil salvage UMP biosynthetic process uracil phosphoribosyltransferase activity calcium-dependent ATPase activity GDP-D-glucose phosphorylase activity pyrimidine nucleoside salvage pyrimidine salvage pathway chloroplast fission L-ascorbate biosynthesis I (L-galactose pathway) Ascorbate and aldarate metabolism Autophagy - yeast Pyrimidine metabolism aromatase activity uridine kinase activity glucose metabolic process endoplasmic reticulum tubular network vesicle docking Transcription_related, Transcription factor: M-type vesicle fusion | details |
| TissueCFM000729 | pyrimidine nucleobases salvage I superpathway of pyrimidine nucleobases salvage superpathway of pyrimidine ribonucleosides salvage regulation of phosphorylation regulation of nitrogen utilization uracil salvage regulation of fatty acid biosynthetic process uracil phosphoribosyltransferase activity acetylglutamate kinase regulator activity UMP biosynthetic process anthocyanin-containing compound biosynthetic process pyrimidine nucleoside salvage pyrimidine salvage pathway formation of glycosidic bonds, GlycosylTransferases: GTnc uridine kinase activity Pyrimidine metabolism vindoline and vinblastine biosynthesis cell wall organization or biogenesis regulation of catalytic activity response to cytokinin | details |
| TissueCFM001198 | L-lysine biosynthesis VI diaminopimelate epimerase activity chromatin silencing regulation of cell shape lysine biosynthetic process via diaminopimelate Wnt signaling pathway Endocytosis Necroptosis peptidyl-serine phosphorylation nucleosome nuclear chromatin Biosynthesis of amino acids | details |
| TissueCFM001244 | regulation of fatty acid biosynthetic process barrier septum site selection regulation of phosphorylation regulation of nitrogen utilization calcium-dependent ATPase activity acetylglutamate kinase regulator activity anthocyanin-containing compound biosynthetic process chloroplast fission hydrolysis and/or rearrangement of glycosidic bonds, Glycoside Hydrolases: GHnc Transcription_related, Transcription factor: C3H cell wall biogenesis xyloglucan metabolic process regulation of catalytic activity xyloglucan:xyloglucosyl transferase activity | details |
| TissueCFM001249 | calcium-dependent ATPase activity galactonolactone dehydrogenase activity L-gulono-1,4-lactone dehydrogenase activity L-ascorbate biosynthesis I (L-galactose pathway) barrier septum site selection Ascorbate and aldarate metabolism Viral carcinogenesis D-arabinono-1,4-lactone oxidase activity chloroplast fission chloroplast envelope nucleosome assembly response to water deprivation phosphoprotein phosphatase activity protein homodimerization activity protein heterodimerization activity | details |
| TissueCFM001697 | IMP dehydrogenase activity calcium-dependent ATPase activity guanosine ribonucleotides de novo biosynthesis adenosine nucleotides degradation I barrier septum site selection GMP biosynthetic process chloroplast fission Wnt signaling pathway nucleotide binding regulation of cell shape Endocytosis peptidyl-serine phosphorylation | details |
| TissueCFM001820 | pyruvate decarboxylation to acetyl CoA Carbon metabolism transferase activity, transferring acyl groups formate dehydrogenase (NAD+) activity Atg8 ligase activity homogentisate 1,2-dioxygenase activity phosphoglycerate dehydrogenase activity tyrosine catabolic process homogentisate catabolic process serine family amino acid biosynthetic process formate catabolic process Tyrosine metabolism L-phenylalanine catabolic process nucleophagy mitophagy cytoplasmic ubiquitin ligase complex Autophagy - animal autophagosome assembly cytosolic ribosome cytosol chloroplast part protein transport NAD binding dioxygenase activity | details |
| TissueCFM001824 | Transcription_related, Transcription regulator: SWI/SNF-SWI3 cytoplasmic ubiquitin ligase complex uracil phosphoribosyltransferase activity beta-ketoacyl-acyl-carrier-protein synthase III activity Atg8 ligase activity 3-oxoacyl-[acyl-carrier-protein] synthase activity histone H3-K4 methylation nucleophagy pyrimidine nucleoside salvage UMP biosynthetic process uracil salvage mitophagy pyrimidine nucleobases salvage I superpathway of pyrimidine nucleobases salvage superpathway of pyrimidine ribonucleosides salvage autophagosome assembly fatty acid biosynthesis initiation I spermine and spermidine degradation III pyrimidine salvage pathway uridine kinase activity potassium ion binding pyruvate kinase activity chloroplast cytosol Rubisco shunt glycolysis IV (plant cytosol) Autophagy - animal Pyrimidine metabolism glycolysis I (from glucose 6-phosphate) glycolytic process Fatty acid metabolism protein transport fatty acid biosynthetic process | details |
| TissueCFM001831 | nucleolus nucleosome assembly nucleosome barrier septum site selection protein targeting to nuclear inner membrane regulation of endosperm development nuclear pore central transport channel nuclear pore organization Ubiquitin_Proteasome_system, E3: HECT chloroplast fission triacylglycerol degradation calcium-dependent ATPase activity NLS-bearing protein import into nucleus Viral carcinogenesis structural constituent of nuclear pore nucleocytoplasmic transporter activity response to water deprivation | details |
| TissueCFM001836 | Cytochrome_P450, Cytochrome P450: CYP89A serine family amino acid biosynthetic process formate catabolic process vernolate biosynthesis I poly-hydroxy fatty acids biosynthesis Transcription_related, Transcription factor: NF-YC Glycosaminoglycan degradation formate dehydrogenase (NAD+) activity phosphoglycerate dehydrogenase activity | details |
Expression profiles
 Show details about module gene expression profiling |