TissueCFM001414's detailed annotation
|
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 |
|---|---|---|
| regulation of alternative mRNA splicing, via spliceosome | 0.004875166 | GO:0000381 |
| Transcription_related, Transcription regulator: mTERF | 0.005308548 | TF family |
| nucleic acid binding | 0.008485412 | GO:0003676 |
| nucleotide binding | 0.008485412 | GO:0000166 |
| seed germination | 0.009253238 | GO:0009845 |
| cytoplasmic mRNA processing body | 0.020451504 | GO:0000932 |
Module member annotation
| Gene ID | Ortholog in Arabidopsis (Blast E-value) | Annotation in Arabidopsis |
|---|---|---|
| CRO_T002466 | AT1G76185 (3.00E-09) | unknown protein |
| CRO_T003037 | AT5G15790 (5.00E-22) | RING/U-box superfamily protein |
| CRO_T025454 | AT3G02330 (2.00E-147) | Pentatricopeptide repeat (PPR) superfamily protein |
| CRO_T025963 | - | - |
| CRO_T033028 | AT1G21150 (6.00E-26) | Mitochondrial transcription termination factor family protein |
| CRO_T033239 | AT3G52380 (6.00E-20) | CP33|chloroplast RNA-binding protein 33; PDE322|PIGMENT DEFECTIVE 322 |
Direct connection functional modules
| Module ID | Function Annotation | Overlap condition |
|---|---|---|
| TissueCFM000508 | 3'-tyrosyl-DNA phosphodiesterase activity specification of floral organ identity regulation of alternative mRNA splicing, via spliceosome RNA catabolic process RNA helicase activity RNA degradation seed germination regulation of gene expression Transcription_related, Transcription regulator: mTERF RNA secondary structure unwinding cytoplasmic mRNA processing body nucleoplasm DNA repair | details |
| TissueCFM000543 | cytosol multi-organism process response to benzoic acid leucyl-tRNA aminoacylation regulation of salicylic acid metabolic process salicylic acid biosynthetic process systemic acquired resistance leucine-tRNA ligase activity phosphoglycerate kinase activity reductive pentose-phosphate cycle plant-type hypersensitive response response to nitrate regulation of translational fidelity NOD-like receptor signaling pathway arginine biosynthetic process glycerol ether metabolic process Calvin-Benson-Bassham cycle gluconeogenesis I glycolysis I (from glucose 6-phosphate) glycolysis IV (plant cytosol) sucrose biosynthesis I (from photosynthesis) volatile benzenoid biosynthesis I (ester formation) N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity aminoacyl-tRNA editing activity cellular response to oxidative stress sulfate assimilation 2-Oxocarboxylic acid metabolism Aminoacyl-tRNA biosynthesis root development glycolytic process | details |
| TissueCFM000623 | zinc ion binding regulation of alternative mRNA splicing, via spliceosome seed germination cytoplasmic mRNA processing body | details |
| TissueCFM000827 | regulation of alternative mRNA splicing, via spliceosome protein refolding Fanconi anemia pathway seed germination RNA degradation microtubule-based movement DNA repair | details |
| TissueCFM001029 | zinc ion binding negative regulation of translational elongation SRP-dependent cotranslational protein targeting to membrane, translocation regulation of alternative mRNA splicing, via spliceosome Protein export signal recognition particle, endoplasmic reticulum targeting outer membrane signal recognition particle receptor complex 7S RNA binding signal recognition particle binding negative regulation of abscisic acid-activated signaling pathway seed germination cytoplasmic mRNA processing body Transcription_related, Transcription regulator: Jumonji protein polyubiquitination protein ubiquitination involved in ubiquitin-dependent protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process | details |
| TissueCFM001178 | cell-cell signaling production of siRNA involved in chromatin silencing by small RNA argininosuccinate metabolic process long-distance posttranscriptional gene silencing urea cycle NOD-like receptor signaling pathway transcription, RNA-templated production of siRNA involved in RNA interference Transcription_related, Transcription regulator: mTERF formation of glycosidic bonds, GlycosylTransferases: GTnc argininosuccinate synthase activity | details |
| TissueCFM001412 | cytosolic large ribosomal subunit | details |
| TissueCFM001413 | Cellular senescence regulation of alternative mRNA splicing, via spliceosome seed germination chloroplast inner membrane cytoplasmic mRNA processing body integral component of membrane | details |
| TissueCFM001468 | regulation of alternative mRNA splicing, via spliceosome nucleic acid binding nucleotide binding seed germination Transcription_related, Transcription regulator: mTERF amino acid binding Transcription_related, Transcription factor: ERF cytoplasmic mRNA processing body | details |
| TissueCFM001504 | regulation of alternative mRNA splicing, via spliceosome transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery specification of floral organ identity protein targeting to nuclear inner membrane RNA export from nucleus RNA catabolic process seed germination protein import into nucleus Mismatch repair RNA helicase activity nucleotide binding structural constituent of nuclear pore nuclear pore inner ring DNA repair RNA degradation cytoplasmic mRNA processing body nucleoplasm RNA transport | details |
| TissueCFM001608 | regulation of alternative mRNA splicing, via spliceosome tRNA pseudouridine synthesis glycolysis I (from glucose 6-phosphate) glycolysis IV (plant cytosol) Rubisco shunt cytoplasmic mRNA processing body mitochondrion negative regulation of abscisic acid-activated signaling pathway seed germination deaminase activity pseudouridine synthase activity pyruvate kinase activity potassium ion binding glycolytic process positive regulation of GTPase activity protein polyubiquitination pollen development protein ubiquitination involved in ubiquitin-dependent protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process GTPase activator activity zinc ion binding | details |
| TissueCFM001620 | Transcription_related, Transcription regulator: SWI/SNF-SWI3 spermine and spermidine degradation III leucyl-tRNA aminoacylation histone H3-K4 methylation regulation of translational fidelity leucine-tRNA ligase activity oxidoreductase activity aminoacyl-tRNA editing activity Aminoacyl-tRNA biosynthesis oxidation-reduction process Spliceosome | details |
| TissueCFM001656 | Transcription_related, Transcription regulator: mTERF negative regulation of microtubule depolymerization microtubule plus-end binding cortical microtubule organization protein stabilization mitotic nuclear division cell growth cell cortex spindle microtubule ribosome biogenesis RNA secondary structure unwinding phragmoplast | 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 |
Expression profiles
 Show details about module gene expression profiling |