TissueCFM001413'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 |
|---|---|---|
| Cellular senescence | 0.001949202 | KEGG pathway |
| regulation of alternative mRNA splicing, via spliceosome | 0.004875166 | GO:0000381 |
| seed germination | 0.009253238 | GO:0009845 |
| chloroplast inner membrane | 0.021226183 | GO:0009706 |
| cytoplasmic mRNA processing body | 0.021226183 | GO:0000932 |
| integral component of membrane | 0.033254718 | GO:0016021 |
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_T003617 | AT2G37860 (4.00E-87) | LCD1|LOWER CELL DENSITY 1 |
| CRO_T018144 | AT4G29730 (4.00E-17) | NFC5|nucleosome/chromatin assembly factor group C5 |
| CRO_T025454 | AT3G02330 (2.00E-147) | Pentatricopeptide repeat (PPR) superfamily protein |
| CRO_T025963 | - | - |
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 |
| 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 |
| TissueCFM000908 | D-cysteine catabolic process histone H3-K9 demethylation negative regulation of histone acetylation GDP-mannose transmembrane transport GDP-mannose transmembrane transporter activity 1-aminocyclopropane-1-carboxylate deaminase activity D-cysteine desulfhydrase activity response to brassinosteroid Cellular senescence ethylene biosynthetic process Transcription_related, Transcription regulator: Jumonji vegetative to reproductive phase transition of meristem leaf development cobalt ion binding unidimensional cell growth Ubiquitin mediated proteolysis proteasome-mediated ubiquitin-dependent protein catabolic process protein ubiquitination involved in ubiquitin-dependent protein catabolic process multicellular organism development zinc ion binding | 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 |
| TissueCFM001412 | cytosolic large ribosomal subunit | 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 |
| 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 |
| TissueCFM001718 | ESCRT I complex transcription factor TFIID complex C-5 methylation of cytosine protein targeting to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway RNA polymerase II transcriptional preinitiation complex assembly histone acetyltransferase binding DNA (cytosine-5-)-methyltransferase activity protein complex binding transcription factor binding transcription coactivator activity transcription regulatory region DNA binding Cellular senescence regulation of transcription from RNA polymerase II promoter chromatin binding Basal transcription factors Cysteine and methionine metabolism Endocytosis | details |
| TissueCFM001786 | Ubiquitin_Proteasome_system, E3: RING Cellular senescence Mismatch repair aspartate family amino acid biosynthetic process homoserine dehydrogenase activity aspartate kinase activity Biosynthesis of amino acids kinesin complex cellular amino acid biosynthetic process microtubule-based movement DNA repair | details |
Expression profiles
 Show details about module gene expression profiling |