Functional clusters

Information

  • Type Gene Ontology
  • Description cellular biosynthetic process

Cluster overview

Species Chromosome Experiment Cluster id Cluster size Number of genes E-value
Saccharum spontaneum Chr1B 3 CH_ssp_594 28 59 0.0000643791
Saccharum spontaneum Chr1B 4 CH_ssp_594 28 59 0.0000643791

Available child term results

Ontology identifier Description Number of clusters
GO:0000024 maltose biosynthetic process 4
GO:0000032 cell wall mannoprotein biosynthetic process 2
GO:0000122 negative regulation of transcription by RNA polymerase II 8
GO:0000162 tryptophan biosynthetic process 4
GO:0000183 rDNA heterochromatin assembly 2
GO:0000290 deadenylation-dependent decapping of nuclear-transcribed mRNA 2
GO:0001172 transcription, RNA-templated 10
GO:0001188 RNA polymerase I preinitiation complex assembly 10
GO:0001731 formation of translation preinitiation complex 2
GO:0002182 cytoplasmic translational elongation 6
GO:0005992 trehalose biosynthetic process 12
GO:0006065 UDP-glucuronate biosynthetic process 4
GO:0006075 (1->3)-beta-D-glucan biosynthetic process 26
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:0006260 DNA replication 12
GO:0006261 DNA-dependent DNA replication 12
GO:0006264 mitochondrial DNA replication 6
GO:0006268 DNA unwinding involved in DNA replication 2
GO:0006269 DNA replication, synthesis of RNA primer 10
GO:0006273 lagging strand elongation 4
GO:0006275 regulation of DNA replication 2
GO:0006279 premeiotic DNA replication 2
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:0006412 translation 8
GO:0006413 translational initiation 2
GO:0006415 translational termination 12
GO:0006417 regulation of translation 4
GO:0006418 tRNA aminoacylation for protein translation 6
GO:0006419 alanyl-tRNA aminoacylation 10
GO:0006420 arginyl-tRNA aminoacylation 4
GO:0006422 aspartyl-tRNA aminoacylation 32
GO:0006424 glutamyl-tRNA aminoacylation 8
GO:0006426 glycyl-tRNA aminoacylation 26
GO:0006427 histidyl-tRNA aminoacylation 2
GO:0006428 isoleucyl-tRNA aminoacylation 2
GO:0006429 leucyl-tRNA aminoacylation 20
GO:0006430 lysyl-tRNA aminoacylation 10
GO:0006431 methionyl-tRNA aminoacylation 8
GO:0006432 phenylalanyl-tRNA aminoacylation 4
GO:0006433 prolyl-tRNA aminoacylation 12
GO:0006434 seryl-tRNA aminoacylation 30
GO:0006435 threonyl-tRNA aminoacylation 10
GO:0006436 tryptophanyl-tRNA aminoacylation 8
GO:0006438 valyl-tRNA aminoacylation 28
GO:0006486 protein glycosylation 112
GO:0006488 dolichol-linked oligosaccharide biosynthetic process 2
GO:0006493 protein O-linked glycosylation 4
GO:0006499 N-terminal protein myristoylation 2
GO:0006506 GPI anchor biosynthetic process 4
GO:0006529 asparagine biosynthetic process 4
GO:0006537 glutamate biosynthetic process 6
GO:0006542 glutamine biosynthetic process 4
GO:0006557 S-adenosylmethioninamine biosynthetic process 2
GO:0006564 L-serine biosynthetic process 2
GO:0006592 ornithine biosynthetic process 4
GO:0006596 polyamine biosynthetic process 6
GO:0006633 fatty acid biosynthetic process 68
GO:0006636 unsaturated fatty acid biosynthetic process 2
GO:0006651 diacylglycerol biosynthetic process 8
GO:0006654 phosphatidic acid biosynthetic process 2
GO:0006661 phosphatidylinositol biosynthetic process 4
GO:0006715 farnesol biosynthetic process 2
GO:0006729 tetrahydrobiopterin biosynthetic process 4
GO:0006741 NADP biosynthetic process 4
GO:0006744 ubiquinone biosynthetic process 4
GO:0006780 uroporphyrinogen III biosynthetic process 2
GO:0006784 heme A biosynthetic process 10
GO:0006799 polyphosphate biosynthetic process 12
GO:0007004 telomere maintenance via telomerase 2
GO:0008299 isoprenoid biosynthetic process 6
GO:0008654 phospholipid biosynthetic process 2
GO:0009070 serine family amino acid biosynthetic process 2
GO:0009073 aromatic amino acid family biosynthetic process 4
GO:0009082 branched-chain amino acid biosynthetic process 4
GO:0009094 L-phenylalanine biosynthetic process 2
GO:0009095 aromatic amino acid family biosynthetic process, prephenate pathway 2
GO:0009097 isoleucine biosynthetic process 4
GO:0009101 glycoprotein biosynthetic process 2
GO:0009250 glucan biosynthetic process 8
GO:0009263 deoxyribonucleotide biosynthetic process 2
GO:0009299 mRNA transcription 2
GO:0009309 amine biosynthetic process 6
GO:0009396 folic acid-containing compound biosynthetic process 2
GO:0009423 chorismate biosynthetic process 2
GO:0009435 NAD biosynthetic process 2
GO:0009443 pyridoxal 5'-phosphate salvage 2
GO:0009686 gibberellin biosynthetic process 8
GO:0009688 abscisic acid biosynthetic process 6
GO:0009691 cytokinin biosynthetic process 2
GO:0009693 ethylene biosynthetic process 12
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:0009969 xyloglucan biosynthetic process 60
GO:0010023 proanthocyanidin biosynthetic process 12
GO:0010024 phytochromobilin biosynthetic process 2
GO:0010116 positive regulation of abscisic acid biosynthetic process 8
GO:0010120 camalexin biosynthetic process 6
GO:0010142 farnesyl diphosphate biosynthetic process, mevalonate pathway 2
GO:0010192 mucilage biosynthetic process 2
GO:0010306 rhamnogalacturonan II biosynthetic process 2
GO:0010323 negative regulation of isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway 2
GO:0010345 suberin biosynthetic process 2
GO:0010364 regulation of ethylene biosynthetic process 2
GO:0010365 positive regulation of ethylene biosynthetic process 4
GO:0010371 regulation of gibberellin biosynthetic process 8
GO:0010373 negative regulation of gibberellin biosynthetic process 2
GO:0010422 regulation of brassinosteroid biosynthetic process 12
GO:0010423 negative regulation of brassinosteroid biosynthetic process 2
GO:0010493 Lewis a epitope biosynthetic process 2
GO:0010513 positive regulation of phosphatidylinositol biosynthetic process 2
GO:0010581 regulation of starch biosynthetic process 4
GO:0010601 positive regulation of auxin biosynthetic process 2
GO:0010728 regulation of hydrogen peroxide biosynthetic process 2
GO:0010729 positive regulation of hydrogen peroxide biosynthetic process 6
GO:0015966 diadenosine tetraphosphate biosynthetic process 2
GO:0015970 guanosine tetraphosphate biosynthetic process 2
GO:0015986 ATP synthesis coupled proton transport 20
GO:0016102 diterpenoid biosynthetic process 44
GO:0016104 triterpenoid biosynthetic process 2
GO:0016106 sesquiterpenoid biosynthetic process 2
GO:0016114 terpenoid biosynthetic process 8
GO:0016255 attachment of GPI anchor to protein 4
GO:0016480 negative regulation of transcription by RNA polymerase III 4
GO:0018131 oxazole or thiazole biosynthetic process 8
GO:0018230 peptidyl-L-cysteine S-palmitoylation 2
GO:0018279 protein N-linked glycosylation via asparagine 8
GO:0019252 starch biosynthetic process 2
GO:0019264 glycine biosynthetic process from serine 6
GO:0019279 L-methionine biosynthetic process from L-homoserine via cystathionine 2
GO:0019305 dTDP-rhamnose biosynthetic process 4
GO:0019365 pyridine nucleotide salvage 6
GO:0019408 dolichol biosynthetic process 2
GO:0019432 triglyceride biosynthetic process 2
GO:0019438 aromatic compound biosynthetic process 6
GO:0019509 L-methionine salvage from methylthioadenosine 2
GO:0019593 mannitol biosynthetic process 2
GO:0019745 pentacyclic triterpenoid biosynthetic process 2
GO:0030174 regulation of DNA-dependent DNA replication initiation 2
GO:0030244 cellulose biosynthetic process 2
GO:0030418 nicotianamine biosynthetic process 28
GO:0031297 replication fork processing 10
GO:0031327 negative regulation of cellular biosynthetic process 2
GO:0031328 positive regulation of cellular biosynthetic process 2
GO:0031408 oxylipin biosynthetic process 32
GO:0031508 pericentric heterochromatin assembly 6
GO:0031936 negative regulation of chromatin silencing 2
GO:0031937 positive regulation of chromatin silencing 2
GO:0032049 cardiolipin biosynthetic process 2
GO:0032055 negative regulation of translation in response to stress 2
GO:0032212 positive regulation of telomere maintenance via telomerase 2
GO:0032264 IMP salvage 8
GO:0032324 molybdopterin cofactor biosynthetic process 2
GO:0032774 RNA biosynthetic process 2
GO:0032784 regulation of DNA-templated transcription, elongation 12
GO:0032875 regulation of DNA endoreduplication 4
GO:0032877 positive regulation of DNA endoreduplication 10
GO:0032968 positive regulation of transcription elongation from RNA polymerase II promoter 12
GO:0033259 plastid DNA replication 2
GO:0033320 UDP-D-xylose biosynthetic process 2
GO:0033387 putrescine biosynthetic process from ornithine 4
GO:0033389 putrescine biosynthetic process from arginine, using agmatinase 8
GO:0033466 trans-zeatin biosynthetic process 2
GO:0033481 galacturonate biosynthetic process 2
GO:0033506 glucosinolate biosynthetic process from homomethionine 2
GO:0033567 DNA replication, Okazaki fragment processing 6
GO:0033866 nucleoside bisphosphate biosynthetic process 2
GO:0034355 NAD salvage 2
GO:0034645 cellular macromolecule biosynthetic process 10
GO:0034654 nucleobase-containing compound biosynthetic process 4
GO:0035278 miRNA mediated inhibition of translation 60
GO:0036066 protein O-linked fucosylation 6
GO:0036092 phosphatidylinositol-3-phosphate biosynthetic process 2
GO:0042218 1-aminocyclopropane-1-carboxylate biosynthetic process 10
GO:0042276 error-prone translesion synthesis 8
GO:0042351 'de novo' GDP-L-fucose biosynthetic process 12
GO:0042371 vitamin K biosynthetic process 4
GO:0042372 phylloquinone biosynthetic process 4
GO:0042759 long-chain fatty acid biosynthetic process 8
GO:0042761 very long-chain fatty acid biosynthetic process 6
GO:0042794 plastid rRNA transcription 2
GO:0042819 vitamin B6 biosynthetic process 4
GO:0043100 pyrimidine nucleobase salvage 10
GO:0043433 negative regulation of DNA-binding transcription factor activity 4
GO:0043447 alkane biosynthetic process 2
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:0044271 cellular nitrogen compound biosynthetic process 4
GO:0045014 carbon catabolite repression of transcription by glucose 4
GO:0045492 xylan biosynthetic process 4
GO:0045717 negative regulation of fatty acid biosynthetic process 2
GO:0045723 positive regulation of fatty acid biosynthetic process 16
GO:0045727 positive regulation of translation 6
GO:0045892 negative regulation of transcription, DNA-templated 8
GO:0045893 positive regulation of transcription, DNA-templated 8
GO:0045901 positive regulation of translational elongation 2
GO:0045944 positive regulation of transcription by RNA polymerase II 14
GO:0046109 uridine biosynthetic process 4
GO:0046202 cyanide biosynthetic process 2
GO:0046512 sphingosine biosynthetic process 18
GO:0046520 sphingoid biosynthetic process 18
GO:0046656 folic acid biosynthetic process 2
GO:0046901 tetrahydrofolylpolyglutamate biosynthetic process 4
GO:0046938 phytochelatin biosynthetic process 10
GO:0048354 mucilage biosynthetic process involved in seed coat development 2
GO:0048358 mucilage pectin biosynthetic process 2
GO:0050665 hydrogen peroxide biosynthetic process 2
GO:0051091 positive regulation of DNA-binding transcription factor activity 6
GO:0051123 RNA polymerase II preinitiation complex assembly 4
GO:0051762 sesquiterpene biosynthetic process 6
GO:0051973 positive regulation of telomerase activity 18
GO:0052324 plant-type cell wall cellulose biosynthetic process 2
GO:0060195 negative regulation of antisense RNA transcription 2
GO:0060211 regulation of nuclear-transcribed mRNA poly(A) tail shortening 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:0061158 3'-UTR-mediated mRNA destabilization 2
GO:0062052 starch granule initiation 2
GO:0070150 mitochondrial glycyl-tRNA aminoacylation 2
GO:0070179 D-serine biosynthetic process 34
GO:0070455 positive regulation of heme biosynthetic process 8
GO:0070592 cell wall polysaccharide biosynthetic process 2
GO:0070716 mismatch repair involved in maintenance of fidelity involved in DNA-dependent DNA replication 2
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:0071266 'de novo' L-methionine biosynthetic process 2
GO:0071932 replication fork reversal 2
GO:0072344 rescue of stalled ribosome 16
GO:0080028 nitrile biosynthetic process 4
GO:0080110 sporopollenin biosynthetic process 4
GO:0080142 regulation of salicylic acid biosynthetic process 6
GO:0090153 regulation of sphingolipid biosynthetic process 4
GO:0090359 negative regulation of abscisic acid biosynthetic process 10
GO:0090431 alkyl caffeate ester biosynthetic process 4
GO:0097167 circadian regulation of translation 2
GO:0097659 nucleic acid-templated transcription 2
GO:0106146 sideretin biosynthesis 12
GO:0106147 fraxetin biosynthesis 2
GO:1900030 regulation of pectin biosynthetic process 4
GO:1900088 regulation of inositol biosynthetic process 2
GO:1900151 regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay 2
GO:1900486 positive regulation of isopentenyl diphosphate biosynthetic process, mevalonate pathway 2
GO:1900706 positive regulation of siderophore biosynthetic process 26
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:1901601 strigolactone biosynthetic process 8
GO:1901695 tyramine biosynthetic process 6
GO:1901747 prephenate(2-) biosynthetic process 2
GO:1901997 negative regulation of indoleacetic acid biosynthetic process via tryptophan 6
GO:1902006 negative regulation of proline biosynthetic process 2
GO:1902609 (R)-2-hydroxy-alpha-linolenic acid biosynthetic process 2
GO:1902979 mitotic DNA replication termination 4
GO:1903730 regulation of phosphatidate phosphatase activity 2
GO:1904143 positive regulation of carotenoid biosynthetic process 2
GO:1904964 positive regulation of phytol biosynthetic process 2
GO:1990426 mitotic recombination-dependent replication fork processing 2
GO:2000013 regulation of arginine biosynthetic process via ornithine 2
GO:2000029 regulation of proanthocyanidin biosynthetic process 6
GO:2000082 regulation of L-ascorbic acid biosynthetic process 2
GO:2000083 negative regulation of L-ascorbic acid biosynthetic process 4
GO:2000113 negative regulation of cellular macromolecule biosynthetic process 14
GO:2000143 negative regulation of DNA-templated transcription, initiation 2
GO:2000541 positive regulation of protein geranylgeranylation 4
GO:2001007 negative regulation of cellulose biosynthetic process 4
GO:2001011 positive regulation of plant-type cell wall cellulose biosynthetic process 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