Functional clusters

Information

  • Type Gene Ontology
  • Description regulation of primary metabolic process

Cluster overview

Species Chromosome Experiment Cluster id Cluster size Number of genes E-value
Beta vulgaris Chr5_EL10_PGA_scaffold2 3 CH_bvu_164 23 80 0.000052147
Manihot esculenta Chromosome01 3 CH_mes_255 10 12 0.0000271887
Beta vulgaris Chr5_EL10_PGA_scaffold2 4 CH_bvu_164 23 80 0.000052147
Manihot esculenta Chromosome01 4 CH_mes_255 10 12 0.0000271887

Available child term results

Ontology identifier Description Number of clusters
GO:0000079 regulation of cyclin-dependent protein serine/threonine kinase activity 14
GO:0000122 negative regulation of transcription by RNA polymerase II 14
GO:0000183 rDNA heterochromatin assembly 16
GO:0000288 nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay 2
GO:0000289 nuclear-transcribed mRNA poly(A) tail shortening 8
GO:0000290 deadenylation-dependent decapping of nuclear-transcribed mRNA 10
GO:0000381 regulation of alternative mRNA splicing, via spliceosome 4
GO:0006109 regulation of carbohydrate metabolic process 4
GO:0006110 regulation of glycolytic process 2
GO:0006282 regulation of DNA repair 2
GO:0006342 chromatin silencing 16
GO:0006346 DNA methylation-dependent heterochromatin assembly 6
GO:0006348 chromatin silencing at telomere 6
GO:0006355 regulation of transcription, DNA-templated 42
GO:0006357 regulation of transcription by RNA polymerase II 62
GO:0006417 regulation of translation 8
GO:0006990 positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response 6
GO:0009963 positive regulation of flavonoid biosynthetic process 6
GO:0010115 regulation of abscisic acid biosynthetic process 12
GO:0010116 positive regulation of abscisic acid biosynthetic process 6
GO:0010371 regulation of gibberellin biosynthetic process 32
GO:0010372 positive regulation of gibberellin biosynthetic process 2
GO:0010422 regulation of brassinosteroid biosynthetic process 44
GO:0010466 negative regulation of peptidase activity 14
GO:0010513 positive regulation of phosphatidylinositol biosynthetic process 2
GO:0010569 regulation of double-strand break repair via homologous recombination 8
GO:0010581 regulation of starch biosynthetic process 4
GO:0010767 regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage 4
GO:0010845 positive regulation of reciprocal meiotic recombination 2
GO:0010896 regulation of triglyceride catabolic process 8
GO:0010951 negative regulation of endopeptidase activity 28
GO:0010964 regulation of heterochromatin assembly by small RNA 4
GO:0017183 peptidyl-diphthamide biosynthetic process from peptidyl-histidine 18
GO:0019218 regulation of steroid metabolic process 30
GO:0031396 regulation of protein ubiquitination 2
GO:0031508 pericentric heterochromatin assembly 18
GO:0031540 regulation of anthocyanin biosynthetic process 8
GO:0031542 positive regulation of anthocyanin biosynthetic process 2
GO:0031935 regulation of chromatin silencing 8
GO:0031937 positive regulation of chromatin silencing 14
GO:0031998 regulation of fatty acid beta-oxidation 2
GO:0032055 negative regulation of translation in response to stress 2
GO:0032147 activation of protein kinase activity 10
GO:0032212 positive regulation of telomere maintenance via telomerase 2
GO:0032268 regulation of cellular protein metabolic process 4
GO:0032269 negative regulation of cellular protein metabolic process 2
GO:0032784 regulation of DNA-templated transcription, elongation 14
GO:0032786 positive regulation of DNA-templated transcription, elongation 8
GO:0032881 regulation of polysaccharide metabolic process 6
GO:0032953 regulation of (1->3)-beta-D-glucan biosynthetic process 2
GO:0032968 positive regulation of transcription elongation from RNA polymerase II promoter 32
GO:0033184 positive regulation of histone ubiquitination 4
GO:0033234 negative regulation of protein sumoylation 6
GO:0034243 regulation of transcription elongation from RNA polymerase II promoter 2
GO:0035065 regulation of histone acetylation 6
GO:0035278 miRNA mediated inhibition of translation 56
GO:0042177 negative regulation of protein catabolic process 14
GO:0043255 regulation of carbohydrate biosynthetic process 4
GO:0043407 negative regulation of MAP kinase activity 2
GO:0043433 negative regulation of DNA-binding transcription factor activity 4
GO:0043484 regulation of RNA splicing 2
GO:0043619 regulation of transcription from RNA polymerase II promoter in response to oxidative stress 6
GO:0043666 regulation of phosphoprotein phosphatase activity 4
GO:0044030 regulation of DNA methylation 6
GO:0045014 carbon catabolite repression of transcription by glucose 2
GO:0045723 positive regulation of fatty acid biosynthetic process 6
GO:0045727 positive regulation of translation 18
GO:0045732 positive regulation of protein catabolic process 2
GO:0045739 positive regulation of DNA repair 4
GO:0045834 positive regulation of lipid metabolic process 2
GO:0045892 negative regulation of transcription, DNA-templated 8
GO:0045893 positive regulation of transcription, DNA-templated 4
GO:0045901 positive regulation of translational elongation 18
GO:0045905 positive regulation of translational termination 2
GO:0045910 negative regulation of DNA recombination 2
GO:0045943 positive regulation of transcription by RNA polymerase I 2
GO:0045944 positive regulation of transcription by RNA polymerase II 34
GO:0048026 positive regulation of mRNA splicing, via spliceosome 4
GO:0048255 mRNA stabilization 4
GO:0050732 negative regulation of peptidyl-tyrosine phosphorylation 2
GO:0051091 positive regulation of DNA-binding transcription factor activity 6
GO:0051252 regulation of RNA metabolic process 4
GO:0051254 positive regulation of RNA metabolic process 4
GO:0051571 positive regulation of histone H3-K4 methylation 8
GO:0051572 negative regulation of histone H3-K4 methylation 2
GO:0051573 negative regulation of histone H3-K9 methylation 2
GO:0051973 positive regulation of telomerase activity 14
GO:0060195 negative regulation of antisense RNA transcription 2
GO:0060261 positive regulation of transcription initiation from RNA polymerase II promoter 16
GO:0060567 negative regulation of DNA-templated transcription, termination 2
GO:0061158 3'-UTR-mediated mRNA destabilization 4
GO:0061866 negative regulation of histone H3-S10 phosphorylation 2
GO:0070829 heterochromatin maintenance 4
GO:0070919 production of siRNA involved in chromatin silencing by small RNA 8
GO:0070920 regulation of production of small RNA involved in gene silencing by RNA 2
GO:0070940 dephosphorylation of RNA polymerase II C-terminal domain 50
GO:0071900 regulation of protein serine/threonine kinase activity 8
GO:0072344 rescue of stalled ribosome 12
GO:0080020 regulation of coenzyme A biosynthetic process 4
GO:0080141 regulation of jasmonic acid biosynthetic process 2
GO:0080149 sucrose induced translational repression 2
GO:0080163 regulation of protein serine/threonine phosphatase activity 6
GO:0090065 regulation of production of siRNA involved in RNA interference 16
GO:0090153 regulation of sphingolipid biosynthetic process 2
GO:0090241 negative regulation of histone H4 acetylation 2
GO:0090309 positive regulation of DNA methylation-dependent heterochromatin assembly 2
GO:0090357 regulation of tryptophan metabolic process 2
GO:0090359 negative regulation of abscisic acid biosynthetic process 4
GO:0097167 circadian regulation of translation 4
GO:0106118 regulation of sterol biosynthetic process 4
GO:1900030 regulation of pectin biosynthetic process 2
GO:1900088 regulation of inositol biosynthetic process 4
GO:1900109 regulation of histone H3-K9 dimethylation 4
GO:1900151 regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay 2
GO:1900363 regulation of mRNA polyadenylation 2
GO:1900364 negative regulation of mRNA polyadenylation 10
GO:1900384 regulation of flavonol biosynthetic process 4
GO:1900386 positive regulation of flavonol biosynthetic process 4
GO:1900486 positive regulation of isopentenyl diphosphate biosynthetic process, mevalonate pathway 8
GO:1901407 regulation of phosphorylation of RNA polymerase II C-terminal domain 2
GO:1901485 positive regulation of transcription factor catabolic process 6
GO:1901537 positive regulation of DNA demethylation 18
GO:1901799 negative regulation of proteasomal protein catabolic process 2
GO:1901800 positive regulation of proteasomal protein catabolic process 2
GO:1901918 negative regulation of exoribonuclease activity 2
GO:1901997 negative regulation of indoleacetic acid biosynthetic process via tryptophan 4
GO:1902066 regulation of cell wall pectin metabolic process 4
GO:1902464 regulation of histone H3-K27 trimethylation 8
GO:1902466 positive regulation of histone H3-K27 trimethylation 2
GO:1902916 positive regulation of protein polyubiquitination 8
GO:1903311 regulation of mRNA metabolic process 22
GO:1903343 positive regulation of meiotic DNA double-strand break formation 2
GO:1903506 regulation of nucleic acid-templated transcription 4
GO:1903730 regulation of phosphatidate phosphatase activity 6
GO:1904143 positive regulation of carotenoid biosynthetic process 4
GO:1904292 regulation of ERAD pathway 2
GO:1904294 positive regulation of ERAD pathway 12
GO:1904667 negative regulation of ubiquitin protein ligase activity 8
GO:1904668 positive regulation of ubiquitin protein ligase activity 28
GO:1904964 positive regulation of phytol biosynthetic process 12
GO:1905038 regulation of membrane lipid metabolic process 2
GO:1905168 positive regulation of double-strand break repair via homologous recombination 4
GO:1905183 negative regulation of protein serine/threonine phosphatase activity 2
GO:1905435 regulation of histone H3-K4 trimethylation 4
GO:1905642 negative regulation of DNA methylation 10
GO:2000042 negative regulation of double-strand break repair via homologous recombination 4
GO:2000082 regulation of L-ascorbic acid biosynthetic process 2
GO:2000083 negative regulation of L-ascorbic acid biosynthetic process 12
GO:2000117 negative regulation of cysteine-type endopeptidase activity 2
GO:2000143 negative regulation of DNA-templated transcription, initiation 48
GO:2000214 regulation of proline metabolic process 12
GO:2000232 regulation of rRNA processing 10
GO:2000234 positive regulation of rRNA processing 8
GO:2000541 positive regulation of protein geranylgeranylation 2
GO:2000617 positive regulation of histone H3-K9 acetylation 2
GO:2000636 positive regulation of primary miRNA processing 6
GO:2000653 regulation of genetic imprinting 2
GO:2000905 negative regulation of starch metabolic process 6
GO:2001006 regulation of cellulose biosynthetic process 4
GO:2001007 negative regulation of cellulose biosynthetic process 34
GO:2001011 positive regulation of plant-type cell wall cellulose biosynthetic process 4
GO:2001141 regulation of RNA biosynthetic process 10
GO:2001253 regulation of histone H3-K36 trimethylation 2
GO:2001280 positive regulation of unsaturated fatty acid biosynthetic process 2

Functional Clusters Experiments

Exp id Data type Data filter Min genes cluster Max genes cluster Max cluster size E-value Tandems removal
1 MapMan No filter applied. 2 30 80 0.001
2 MapMan No filter applied. 2 30 80 0.001
3 GO All GO data. 2 30 80 0.001
4 GO All GO data. 2 30 80 0.001
5 InterPro No filter applied. 2 30 80 0.001
6 InterPro No filter applied. 2 30 80 0.001