TreatCFM000096'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 |
|---|---|---|
| Protein_kinases_phosphatases, PPC:1.4.1: Crinkly 4 Like Kinase | 0.001890052 | kinase family |
| DNA ligation involved in DNA repair | 0.00442935 | GO:0051103 |
| double-strand break repair via nonhomologous end joining | 0.00442935 | GO:0006303 |
| lagging strand elongation | 0.00442935 | GO:0006273 |
| protein ADP-ribosylation | 0.00442935 | GO:0006471 |
| nucleic acid binding | 0.007729813 | GO:0003676 |
| hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances | 0.007729813 | GO:0016820 |
| NAD+ ADP-ribosyltransferase activity | 0.007729813 | GO:0003950 |
| DNA ligase (ATP) activity | 0.007729813 | GO:0003910 |
| adenosine ribonucleotides de novo biosynthesis | 0.007776332 | plantCyc |
| Base excision repair | 0.029769234 | KEGG pathway |
| NF-kappa B signaling pathway | 0.029769234 | KEGG pathway |
Module member annotation
| Gene ID | Ortholog in Arabidopsis (Blast E-value) | Annotation in Arabidopsis |
|---|---|---|
| CRO_T003761 | AT3G20890 (3.00E-78) | RNA-binding (RRM/RBD/RNP motifs) family protein |
| CRO_T005790 | AT3G42050 (1.00E-45) | vacuolar ATP synthase subunit H family protein |
| CRO_T009387 | AT3G26700 (7.00E-56) | Protein kinase superfamily protein |
| CRO_T014904 | AT4G26000 (4.00E-78) | PEP|PEPPER |
| CRO_T015004 | AT4G20060 (7.00E-09) | EMB1895|EMBRYO DEFECTIVE 1895 |
| CRO_T024590 | AT5G52290 (0) | SHOC1|SHORTAGE IN CHIASMATA 1 |
| CRO_T027641 | - | - |
| CRO_T032668 | AT4G02390 (0) | APP|poly(ADP-ribose) polymerase; PARP2|poly(ADP-ribose) polymerase 2 |
Direct connection functional modules
| Module ID | Function Annotation | Overlap condition |
|---|---|---|
| TreatCFM000050 | details | |
| TreatCFM000131 | post-embryonic root development U5 snRNA 3'-end processing exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) nuclear polyadenylation-dependent mRNA catabolic process nuclear polyadenylation-dependent tRNA catabolic process U1 snRNA 3'-end processing nuclear polyadenylation-dependent rRNA catabolic process nuclear mRNA surveillance nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5' U4 snRNA 3'-end processing MAPK signaling pathway - yeast AU-rich element binding protein domain specific binding cytoplasmic exosome (RNase complex) nuclear exosome (RNase complex) RNA degradation Transcription_related, Transcription factor: HB | details |
| TreatCFM000208 | adenosine ribonucleotides de novo biosynthesis Golgi apparatus cell division site cell plate plant-type vacuole nuclear envelope cytokinesis by cell plate formation nucleic acid binding O-acetyltransferase activity cell wall organization or biogenesis | details |
| TreatCFM000229 | mitotic spindle assembly checkpoint Protein_kinases_phosphatases, PPC:1.4.1: Crinkly 4 Like Kinase Transcription_related, Transcription factor: bZIP Cell cycle NF-kappa B signaling pathway | details |
| TreatCFM000254 | Amyotrophic lateral sclerosis (ALS) Transcription_related, Transcription regulator: SWI/SNF-SWI3 mitochondrial outer membrane translocase complex spermine and spermidine degradation III histone H3-K4 methylation protein import into mitochondrial matrix protein channel activity | details |
| TreatCFM000501 | adenosine ribonucleotides de novo biosynthesis DNA integration hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances single-organism metabolic process | details |
| TreatCFM000637 | Amyotrophic lateral sclerosis (ALS) mitochondrial outer membrane translocase complex protein import into mitochondrial matrix vacuolar transport NLS-bearing protein import into nucleus base-excision repair DNA N-glycosylase activity nucleoplasm nuclear pore Base excision repair Lysosome regulation of catalytic activity nuclear localization sequence binding protein channel activity cysteine-type endopeptidase activity protein transporter activity Endocytosis | details |
| TreatCFM000971 | mitotic spindle assembly checkpoint Protein_kinases_phosphatases, PPC:1.4.1: Crinkly 4 Like Kinase Transcription_related, Transcription factor: bZIP Cell cycle NF-kappa B signaling pathway | details |
| TreatCFM001161 | Transcription_related, Transcription regulator: LIM glycolysis I (from glucose 6-phosphate) Transcription_related, Transcription factor: C2H2 | details |
| TreatCFM001186 | formation of glycosidic bonds, GlycosylTransferases: GTnc Various types of N-glycan biosynthesis Lewis a epitope biosynthetic process L-methionine biosynthetic process from S-adenosylmethionine fucosylation S-methyl-5-thio-α-D-ribose 1-phosphate degradation adenosine ribonucleotides de novo biosynthesis L-methionine biosynthetic process from methylthioadenosine fucosyltransferase activity ribosomal small subunit assembly S-methyl-5-thioribose-1-phosphate isomerase activity plant-type vacuole Golgi cisterna membrane protein glycosylation Ubiquitin_Proteasome_system, E3: U-box Cysteine and methionine metabolism | details |
| TreatCFM001242 | DNA replication, synthesis of RNA primer primosome complex DNA primase activity Cell cycle 4 iron, 4 sulfur cluster binding | details |
| TreatCFM001305 | Ubiquitin_Proteasome_system, DUB: JAMM regulation of root morphogenesis adenosine ribonucleotides de novo biosynthesis actin filament depolymerization response to hormone actin cytoskeleton ATP synthesis coupled proton transport proton-transporting ATP synthase complex, catalytic core F(1) AMPK signaling pathway Regulation of actin cytoskeleton proton-transporting ATP synthase activity, rotational mechanism proton-transporting ATPase activity, rotational mechanism actin binding | details |
| TreatCFM001380 | Fanconi anemia pathway Pyrimidine metabolism pollen exine formation pyrimidine nucleotide biosynthetic process 'de novo' pyrimidine nucleobase biosynthetic process nucleotide phosphorylation CMP phosphorylation pyrimidine deoxyribonucleotide phosphorylation UTP and CTP de novo biosynthesis cytidylate kinase activity uridylate kinase activity adhesion to carbohydrates, Carbohydrate-Binding Modules: CBM57 hydrolysis and/or rearrangement of glycosidic bonds, Glycoside Hydrolases: GHnc adenosine ribonucleotides de novo biosynthesis pyrimidine ribonucleotides interconversion | details |
| TreatCFM001381 | vacuolar transport Arachidonic acid metabolism Fanconi anemia pathway Endocytosis | details |
| TreatCFM001410 | polyamine transmembrane transport mitotic spindle assembly checkpoint Transcription_related, Transcription factor: bZIP cellular metabolic process amino acid transmembrane transport L-amino acid transmembrane transporter activity polyamine transmembrane transporter activity Cell cycle | details |
| TreatCFM001888 | 3'-phosphoadenosine 5'-phosphosulfate transmembrane transporter activity 3'-phospho-5'-adenylyl sulfate transmembrane transport Transcription_related, Transcription regulator: TRAF integral component of Golgi membrane clathrin vesicle coat integral component of endoplasmic reticulum membrane ATP-dependent peptidase activity Ubiquitin_Proteasome_system, E3 adaptor: BTB carbohydrate transport Plant hormone signal transduction vesicle-mediated transport endomembrane system | details |
| TreatCFM001942 | formation of glycosidic bonds, GlycosylTransferases: GTnc Various types of N-glycan biosynthesis adenosine ribonucleotides de novo biosynthesis Lewis a epitope biosynthetic process fucosylation regulation of root morphogenesis deoxyribonucleotide biosynthetic process Golgi cisterna membrane fucosyltransferase activity ribonucleoside-diphosphate reductase complex proton-transporting ATP synthase complex, catalytic core F(1) ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor protein glycosylation ATP synthesis coupled proton transport cell wall organization or biogenesis DNA replication proton-transporting ATP synthase activity, rotational mechanism proton-transporting ATPase activity, rotational mechanism O-acetyltransferase activity | details |
| TreatCFM002029 | Transcription_related, Transcription regulator: TRAF Ubiquitin_Proteasome_system, E3 adaptor: BTB Plant hormone signal transduction Spliceosome | details |
| TreatCFM002133 | Various types of N-glycan biosynthesis formation of glycosidic bonds, GlycosylTransferases: GTnc Lewis a epitope biosynthetic process fucosylation xylogalacturonan biosynthesis Insulin signaling pathway Golgi cisterna membrane fucosyltransferase activity exocyst protein glycosylation exocytosis Ubiquitin_Proteasome_system, E3: U-box | details |
Expression profiles
 Show details about module gene expression profiling |