Functional clusters

Information

  • Type Gene Ontology
  • Description aromatic compound biosynthetic process

Cluster overview

Species Chromosome Experiment Cluster id Cluster size Number of genes E-value
Brachypodium distachyon Bd3 3 CH_bdi_308 14 32 0.00066402
Oryza brachyantha 12 3 CH_obr_132 12 18 0.0000041237
Triticum turgidum chr7A 3 CH_ttu_731 19 56 0.000953594
Brachypodium distachyon Bd3 4 CH_bdi_308 14 32 0.00066402
Oryza brachyantha 12 4 CH_obr_132 12 18 0.0000041237
Triticum turgidum chr7A 4 CH_ttu_731 19 56 0.000953594

Available child term results

Ontology identifier Description Number of clusters
GO:0000122 negative regulation of transcription by RNA polymerase II 8
GO:0000162 tryptophan biosynthetic process 4
GO:0000183 rDNA heterochromatin assembly 2
GO:0001172 transcription, RNA-templated 10
GO:0001188 RNA polymerase I preinitiation complex assembly 10
GO:0006065 UDP-glucuronate biosynthetic process 4
GO:0006169 adenosine salvage 2
GO:0006176 dATP biosynthetic process from ADP 2
GO:0006177 GMP biosynthetic process 2
GO:0006182 cGMP biosynthetic process 4
GO:0006183 GTP biosynthetic process 2
GO:0006226 dUMP biosynthetic process 2
GO:0006228 UTP biosynthetic process 2
GO:0006233 dTDP biosynthetic process 4
GO:0006269 DNA replication, synthesis of RNA primer 10
GO:0006342 chromatin silencing 4
GO:0006346 DNA methylation-dependent heterochromatin assembly 2
GO:0006348 chromatin silencing at telomere 2
GO:0006351 transcription, DNA-templated 2
GO:0006352 DNA-templated transcription, initiation 12
GO:0006353 DNA-templated transcription, termination 44
GO:0006354 DNA-templated transcription, elongation 4
GO:0006355 regulation of transcription, DNA-templated 18
GO:0006357 regulation of transcription by RNA polymerase II 34
GO:0006360 transcription by RNA polymerase I 8
GO:0006367 transcription initiation from RNA polymerase II promoter 4
GO:0006369 termination of RNA polymerase II transcription 12
GO:0006383 transcription by RNA polymerase III 2
GO:0006384 transcription initiation from RNA polymerase III promoter 4
GO:0006557 S-adenosylmethioninamine biosynthetic process 2
GO:0006729 tetrahydrobiopterin biosynthetic process 4
GO:0006741 NADP biosynthetic process 4
GO:0006780 uroporphyrinogen III biosynthetic process 2
GO:0006784 heme A biosynthetic process 10
GO:0007004 telomere maintenance via telomerase 2
GO:0009073 aromatic amino acid family biosynthetic process 4
GO:0009094 L-phenylalanine biosynthetic process 2
GO:0009095 aromatic amino acid family biosynthetic process, prephenate pathway 2
GO:0009263 deoxyribonucleotide biosynthetic process 2
GO:0009299 mRNA transcription 2
GO:0009396 folic acid-containing compound biosynthetic process 2
GO:0009435 NAD biosynthetic process 2
GO:0009443 pyridoxal 5'-phosphate salvage 2
GO:0009697 salicylic acid biosynthetic process 58
GO:0009759 indole glucosinolate biosynthetic process 10
GO:0009807 lignan biosynthetic process 8
GO:0009809 lignin biosynthetic process 14
GO:0010023 proanthocyanidin biosynthetic process 12
GO:0010024 phytochromobilin biosynthetic process 2
GO:0010120 camalexin biosynthetic process 6
GO:0010345 suberin biosynthetic process 2
GO:0015966 diadenosine tetraphosphate biosynthetic process 2
GO:0015970 guanosine tetraphosphate biosynthetic process 2
GO:0015986 ATP synthesis coupled proton transport 20
GO:0016480 negative regulation of transcription by RNA polymerase III 4
GO:0019305 dTDP-rhamnose biosynthetic process 4
GO:0019365 pyridine nucleotide salvage 6
GO:0031508 pericentric heterochromatin assembly 6
GO:0031936 negative regulation of chromatin silencing 2
GO:0031937 positive regulation of chromatin silencing 2
GO:0032212 positive regulation of telomere maintenance via telomerase 2
GO:0032264 IMP salvage 8
GO:0032774 RNA biosynthetic process 2
GO:0032784 regulation of DNA-templated transcription, elongation 12
GO:0032968 positive regulation of transcription elongation from RNA polymerase II promoter 12
GO:0033320 UDP-D-xylose biosynthetic process 2
GO:0033466 trans-zeatin biosynthetic process 2
GO:0033866 nucleoside bisphosphate biosynthetic process 2
GO:0034355 NAD salvage 2
GO:0034654 nucleobase-containing compound biosynthetic process 4
GO:0042276 error-prone translesion synthesis 8
GO:0042351 'de novo' GDP-L-fucose biosynthetic process 12
GO:0042794 plastid rRNA transcription 2
GO:0043100 pyrimidine nucleobase salvage 10
GO:0043433 negative regulation of DNA-binding transcription factor activity 4
GO:0043619 regulation of transcription from RNA polymerase II promoter in response to oxidative stress 2
GO:0044205 'de novo' UMP biosynthetic process 34
GO:0045014 carbon catabolite repression of transcription by glucose 4
GO:0045892 negative regulation of transcription, DNA-templated 8
GO:0045893 positive regulation of transcription, DNA-templated 8
GO:0045944 positive regulation of transcription by RNA polymerase II 14
GO:0046109 uridine biosynthetic process 4
GO:0046656 folic acid biosynthetic process 2
GO:0046901 tetrahydrofolylpolyglutamate biosynthetic process 4
GO:0051091 positive regulation of DNA-binding transcription factor activity 6
GO:0051123 RNA polymerase II preinitiation complex assembly 4
GO:0051973 positive regulation of telomerase activity 18
GO:0060195 negative regulation of antisense RNA transcription 2
GO:0060261 positive regulation of transcription initiation from RNA polymerase II promoter 6
GO:0060567 negative regulation of DNA-templated transcription, termination 2
GO:0070455 positive regulation of heme biosynthetic process 8
GO:0070897 transcription preinitiation complex assembly 12
GO:0070919 production of siRNA involved in chromatin silencing by small RNA 6
GO:0070940 dephosphorylation of RNA polymerase II C-terminal domain 10
GO:0080110 sporopollenin biosynthetic process 4
GO:0080142 regulation of salicylic acid biosynthetic process 6
GO:0090431 alkyl caffeate ester biosynthetic process 4
GO:0097659 nucleic acid-templated transcription 2
GO:0106146 sideretin biosynthesis 12
GO:0106147 fraxetin biosynthesis 2
GO:1901183 positive regulation of camalexin biosynthetic process 2
GO:1901407 regulation of phosphorylation of RNA polymerase II C-terminal domain 2
GO:1901430 positive regulation of syringal lignin biosynthetic process 8
GO:1901599 (-)-pinoresinol biosynthetic process 60
GO:1901695 tyramine biosynthetic process 6
GO:1901997 negative regulation of indoleacetic acid biosynthetic process via tryptophan 6
GO:2000029 regulation of proanthocyanidin biosynthetic process 6
GO:2000143 negative regulation of DNA-templated transcription, initiation 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