TissueCFM000269'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 |
|---|---|---|
| maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) | 0.00046826 | GO:0000463 |
| structural constituent of ribosome | 0.001115865 | GO:0003735 |
| cytoplasmic translation | 0.002101333 | GO:0002181 |
| poly(A) RNA binding | 0.00210512 | GO:0044822 |
| Ribosome | 0.004718587 | KEGG pathway |
| mitotic recombination-dependent replication fork processing | 0.015683232 | GO:1990426 |
| uridylyltransferase activity | 0.021239451 | GO:0070569 |
| chromosome organization involved in meiotic cell cycle | 0.023514423 | GO:0070192 |
| DNA recombinase assembly | 0.028204806 | GO:0000730 |
| reciprocal meiotic recombination | 0.028695313 | GO:0007131 |
| response to ionizing radiation | 0.028695313 | GO:0010212 |
| mitotic recombination | 0.028695313 | GO:0006312 |
| strand invasion | 0.028695313 | GO:0042148 |
| spliceosomal complex assembly | 0.032847342 | GO:0000245 |
| cytosolic large ribosomal subunit | 0.037244579 | GO:0022625 |
| translation | 0.041974987 | GO:0006412 |
| potassium ion binding | 0.044484424 | GO:0030955 |
| recombinase activity | 0.044484424 | GO:0000150 |
| pyruvate kinase activity | 0.044484424 | GO:0004743 |
| DNA-dependent ATPase activity | 0.044484424 | GO:0008094 |
| four-way junction DNA binding | 0.044484424 | GO:0000400 |
| Rho guanyl-nucleotide exchange factor activity | 0.044484424 | GO:0005089 |
| endodeoxyribonuclease activity | 0.044484424 | GO:0004520 |
| Transcription_related, Transcription factor: LOB | 0.046471123 | TF family |
Module member annotation
| Gene ID | Ortholog in Arabidopsis (Blast E-value) | Annotation in Arabidopsis |
|---|---|---|
| CRO_T001798 | AT3G04050 (8.00E-31) | Pyruvate kinase family protein |
| CRO_T005319 | AT3G03600 (4.00E-70) | RPS2|ribosomal protein S2 |
| CRO_T009563 | AT1G73530 (9.00E-13) | RNA-binding (RRM/RBD/RNP motifs) family protein |
| CRO_T009815 | AT5G02010 (1.00E-176) | ROPGEF7|ROP (rho of plants) guanine nucleotide exchange factor 7 |
| CRO_T010473 | AT2G16595 (4.00E-70) | Translocon-associated protein (TRAP), alpha subunit |
| CRO_T011485 | AT3G04560 (2.00E-108) | unknown protein |
| CRO_T012263 | AT1G62720 (1.00E-47) | NG1|novel gene 1 |
| CRO_T013099 | AT1G25490 (6.00E-07) | EER1|ENHANCED ETHYLENE RESPONSE 1; RCN1|ROOTS CURL IN NPA |
| CRO_T014950 | AT1G48580 (8.00E-47) | unknown protein |
| CRO_T017073 | AT2G39950 (1.00E-11) | unknown protein |
| CRO_T018871 | AT1G27400 (6.00E-84) | Ribosomal protein L22p/L17e family protein |
| CRO_T020760 | AT3G60850 (0) | unknown protein |
| CRO_T025682 | AT4G14660 (2.00E-60) | NRPE7|RNA polymerase Rpb7-like, N-terminal domain |
| CRO_T026333 | AT5G20850 (2.00E-173) | ATRAD51; RAD51|RAS associated with diabetes protein 51 |
| CRO_T030794 | AT2G44120 (2.00E-88) | Ribosomal protein L30/L7 family protein |
| CRO_T030795 | AT2G44120 (2.00E-107) | Ribosomal protein L30/L7 family protein |
Direct connection functional modules
| Module ID | Function Annotation | Overlap condition |
|---|---|---|
| TissueCFM000010 | Transcription_related, Transcription factor: Orphans spliceosomal complex assembly U12-type spliceosomal complex U2-type prespliceosome U2 snRNP mRNA binding catalytic step 2 spliceosome signal transduction kinase activity | details |
| TissueCFM000023 | abscisic acid biosynthesis brassinosteroids inactivation brassinosteroid metabolic process Brassinosteroid biosynthesis U12-type spliceosomal complex U2-type prespliceosome U2 snRNP catalytic step 2 spliceosome spliceosomal complex assembly brassinosteroid homeostasis protein deubiquitination Transcription_related, Transcription factor: LOB Ubiquitin_Proteasome_system, DUB: USP ubiquitin-dependent protein catabolic process | details |
| TissueCFM000057 | 2'-deoxymugineic acid phytosiderophore biosynthesis L-phenylalanine biosynthesis III (cytosolic, plants) ubiquitin-dependent protein catabolic process U12-type spliceosomal complex U2-type prespliceosome U2 snRNP catalytic step 2 spliceosome gibberellin catabolic process chiasma assembly triglyceride lipase activity C-19 gibberellin 2-beta-dioxygenase activity thiol-dependent ubiquitin-specific protease activity protein deubiquitination cellular amino acid metabolic process spliceosomal complex assembly response to light stimulus | details |
| TissueCFM000076 | 1,4-beta-D-xylan synthase activity protein kinase activator activity glucuronoxylan glucuronosyltransferase activity activation of protein kinase activity glucuronoxylan biosynthetic process large ribosomal subunit rRNA binding glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity plant-type secondary cell wall biogenesis chromatin silencing spliceosomal complex assembly cytoplasmic translation translational elongation formation of glycosidic bonds, GlycosylTransferases: GTnc mRNA binding Necroptosis U2 snRNP nuclear chromatin U2-type prespliceosome U12-type spliceosomal complex nucleosome preribosome, large subunit precursor catalytic step 2 spliceosome | details |
| TissueCFM000158 | formation of glycosidic bonds, GlycosylTransferases: GTnc ER to Golgi transport vesicle trans-lycopene biosynthesis II (plants) pentose phosphate pathway (oxidative branch) I oxidation-reduction process pentose-phosphate shunt glucose metabolic process glucose-6-phosphate dehydrogenase activity cytoplasm | details |
| TissueCFM000281 | Protein_kinases_phosphatases, PPC:1.5.1: Wall Associated Kinase-like Kinase Transcription_related, Transcription factor: LOB response to glucose defense response to fungus cell surface receptor signaling pathway response to salt stress response to abscisic acid zinc ion binding | details |
| TissueCFM000308 | transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding spliceosomal complex assembly positive regulation of transcription from RNA polymerase II promoter methylerythritol phosphate pathway I methylerythritol phosphate pathway II Transcription_related, Transcription factor: M-type U12-type spliceosomal complex U2-type prespliceosome U2 snRNP Thiamine metabolism | details |
| TissueCFM000366 | N6-(1,2-dicarboxyethyl)AMP AMP-lyase (fumarate-forming) activity (S)-2-(5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxamido)succinate AMP-lyase (fumarate-forming) activity inosine-5'-phosphate biosynthesis II 'de novo' AMP biosynthetic process protein tetramerization Transcription_related, Transcription factor: LOB 'de novo' IMP biosynthetic process adenosine ribonucleotides de novo biosynthesis response to stress helicase activity unfolded protein binding | details |
| TissueCFM000442 | nucleocytoplasmic transport chromosome organization involved in meiotic cell cycle mitotic recombination-dependent replication fork processing strand invasion response to ionizing radiation DNA recombinase assembly reciprocal meiotic recombination mitotic recombination condensed nuclear chromosome MicroRNAs in cancer endodeoxyribonuclease activity recombinase activity L-amino acid transmembrane transporter activity binding four-way junction DNA binding DNA-dependent ATPase activity single-stranded DNA binding Ran GTPase binding nucleoplasm double-stranded DNA binding amino acid transmembrane transport Homologous recombination protein transporter activity antiporter activity RNA transport | details |
| TissueCFM000488 | methylerythritol phosphate pathway I methylerythritol phosphate pathway II hydrolysis and/or rearrangement of glycosidic bonds, Glycoside Hydrolases: GHnc Transcription_related, Transcription factor: C2C2-GATA Thiamine metabolism | details |
| TissueCFM000693 | pentose phosphate pathway (oxidative branch) I UDP-glucose biosynthesis ER to Golgi transport vesicle stachyose degradation sucrose biosynthesis II uridylyltransferase activity glucose-6-phosphate dehydrogenase activity Transcription_related, Transcription factor: LOB Rho guanyl-nucleotide exchange factor activity structural constituent of ribosome pentose-phosphate shunt maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) glucose metabolic process poly(A) RNA binding cytoplasmic translation DNA metabolic process | details |
| TissueCFM000694 | pentose phosphate pathway (oxidative branch) I ER to Golgi transport vesicle glucose-6-phosphate dehydrogenase activity second spliceosomal transesterification activity glucan catabolic process RNA splicing, via transesterification reactions Rho guanyl-nucleotide exchange factor activity scopolin beta-glucosidase activity pentose-phosphate shunt glucose metabolic process hydrolase activity | details |
| TissueCFM000759 | Proteasome cytosolic proteasome complex nuclear proteasome complex positive regulation of RNA polymerase II transcriptional preinitiation complex assembly positive regulation of proteasomal protein catabolic process proteasome regulatory particle, base subcomplex TBP-class protein binding proteasome-activating ATPase activity ER-associated ubiquitin-dependent protein catabolic process ubiquitin-dependent protein catabolic process phosphate acquisition positive regulation of circadian rhythm response to far red light Circadian rhythm red, far-red light phototransduction spliceosomal complex assembly U2-type prespliceosome U12-type spliceosomal complex U2 snRNP proteasome complex triglyceride lipase activity protein deubiquitination thiol-dependent ubiquitin-specific protease activity | details |
| TissueCFM000761 | homospermidine biosynthesis hypusine biosynthesis deoxyhypusine synthase activity homospermidine synthase (spermidine-specific) activity triglyceride lipase activity peptide binding deoxyhypusine biosynthetic process from spermidine peptidyl-lysine modification to peptidyl-hypusine peptidyl-prolyl cis-trans isomerase activity viral nucleocapsid intracellular ribonucleoprotein complex embryo sac development Transcription_related, Transcription factor: LOB Ubiquitin_Proteasome_system, E3 adaptor: BTB Ubiquitin_Proteasome_system, E3 adaptor: SKP1 protein peptidyl-prolyl isomerization | details |
| TissueCFM000830 | pyruvate kinase activity potassium ion binding Rho guanyl-nucleotide exchange factor activity DNA metabolic process glycolytic process maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) positive regulation of GTPase activity cytoplasmic translation Cellular senescence poly(A) RNA binding Ubiquitin_Proteasome_system, E3 adaptor: DWD DNA replication | details |
| TissueCFM000878 | hydrolysis and/or rearrangement of glycosidic bonds, Glycoside Hydrolases: GHnc Ubiquitin_Proteasome_system, DUB: USP U2-type prespliceosome U12-type spliceosomal complex U2 snRNP xyloglucan metabolic process protein deubiquitination potassium ion transmembrane transport cell wall biogenesis cytoplasmic translation spliceosomal complex assembly potassium ion transmembrane transporter activity thiol-dependent ubiquitinyl hydrolase activity xyloglucan:xyloglucosyl transferase activity mRNA binding catalytic step 2 spliceosome ubiquitin-dependent protein catabolic process | details |
| TissueCFM000927 | formation of glycosidic bonds, GlycosylTransferases: GTnc Transcription_related, Transcription factor: CPP dolichyl pyrophosphate Man9GlcNAc2 alpha-1,3-glucosyltransferase activity GDP-mannose biosynthesis L-ascorbate biosynthesis I (L-galactose pathway) protein N-glycosylation (eukaryotic, high mannose) regulation of mitotic metaphase/anaphase transition oligosaccharide-lipid intermediate biosynthetic process protein N-linked glycosylation Transcription_related, Transcription factor: LOB anaphase-promoting complex DNA biosynthetic process DNA-directed DNA polymerase activity nucleotidyltransferase activity biosynthetic process DNA replication Fructose and mannose metabolism N-Glycan biosynthesis Ubiquitin mediated proteolysis | details |
| TissueCFM001132 | alpha-1,4-glucan synthase activity starch synthase activity starch biosynthesis formation of glycosidic bonds, GlycosylTransferases: GTnc Transcription_related, Transcription factor: CPP amylopectin biosynthetic process glycogen (starch) synthase activity starch biosynthetic process Transcription_related, Transcription factor: LOB amyloplast Starch and sucrose metabolism methyltransferase activity | details |
| TissueCFM001421 | Protein_kinases_phosphatases, PPC:2.1.5: ATN1 Like Family hydrolysis and/or rearrangement of glycosidic bonds, Glycoside Hydrolases: GHnc glucan catabolic process RNA splicing, via transesterification reactions scopolin beta-glucosidase activity Rho guanyl-nucleotide exchange factor activity second spliceosomal transesterification activity DNA metabolic process positive regulation of GTPase activity beta-glucosidase activity spliceosomal complex DNA replication | details |
Expression profiles
 Show details about module gene expression profiling |