TissueCFM000508'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 |
|---|---|---|
| 3'-tyrosyl-DNA phosphodiesterase activity | 0.012037985 | GO:0017005 |
| specification of floral organ identity | 0.012846211 | GO:0010093 |
| regulation of alternative mRNA splicing, via spliceosome | 0.012846211 | GO:0000381 |
| RNA catabolic process | 0.013698374 | GO:0006401 |
| RNA helicase activity | 0.015042812 | GO:0003724 |
| RNA degradation | 0.01736409 | KEGG pathway |
| seed germination | 0.019497987 | GO:0009845 |
| regulation of gene expression | 0.019497987 | GO:0010468 |
| Transcription_related, Transcription regulator: mTERF | 0.021214757 | TF family |
| RNA secondary structure unwinding | 0.0349825 | GO:0010501 |
| cytoplasmic mRNA processing body | 0.03499918 | GO:0000932 |
| nucleoplasm | 0.03499918 | GO:0005654 |
| DNA repair | 0.047419411 | GO:0006281 |
Module member annotation
| Gene ID | Ortholog in Arabidopsis (Blast E-value) | Annotation in Arabidopsis |
|---|---|---|
| CRO_T002046 | AT1G63250 (0) | DEA(D/H)-box RNA helicase family protein |
| CRO_T002409 | AT1G59760 (0) | MTR4|homolog of yeast MTR4 |
| CRO_T017531 | AT5G45790 (4.00E-102) | Ubiquitin carboxyl-terminal hydrolase family protein |
| CRO_T023727 | - | - |
| CRO_T025963 | - | - |
| CRO_T029933 | AT5G15170 (0) | TDP1|tyrosyl-DNA phosphodiesterase 1 |
| CRO_T033028 | AT1G21150 (6.00E-26) | Mitochondrial transcription termination factor family protein |
| CRO_T033455 | AT3G49250 (2.00E-72) | DMS3|DEFECTIVE IN MERISTEM SILENCING 3; IDN1|INVOLVED IN DE NOVO 1 |
Direct connection functional modules
| Module ID | Function Annotation | Overlap condition |
|---|---|---|
| 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 |
| TissueCFM001106 | formation of glycosidic bonds, GlycosylTransferases: GTnc 3'-tyrosyl-DNA phosphodiesterase activity tRNA dihydrouridine synthase activity tRNA dihydrouridine synthesis Transcription_related, Transcription factor: C3H DNA repair flavin adenine dinucleotide binding | 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 |
| TissueCFM001413 | Cellular senescence regulation of alternative mRNA splicing, via spliceosome seed germination chloroplast inner membrane cytoplasmic mRNA processing body integral component of membrane | details |
| TissueCFM001414 | regulation of alternative mRNA splicing, via spliceosome Transcription_related, Transcription regulator: mTERF nucleic acid binding nucleotide binding seed germination cytoplasmic mRNA processing body | 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 |
| 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 |
Expression profiles
 Show details about module gene expression profiling |