Functional clusters

Information

  • Type Gene Ontology
  • Description regulation of gene expression

Cluster overview

Species Chromosome Experiment Cluster id Cluster size Number of genes E-value
Camellia sinensis var. sinensis Chr6 3 CH_camsi_712 13 32 0.000334975
Lonicera japonica GWHAAZE00000009 3 CH_lonja_265 16 35 0.000000695663
Magnolia biondii Chr07 3 CH_mbi_286 12 23 0.00000168834
Nicotiana tabacum Nitab4.5_0000016 3 CH_nta_64 10 15 0.0000171245
Oryza sativa ssp. japonica chr07 3 CH_osa_266 9 11 0.0000390349
Solanum pennellii Spenn-ch04 3 CH_spe_225 20 79 0.0000119185
Solanum pennellii Spenn-ch08 3 CH_spe_226 20 79 0.0000119185
Solanum tuberosum ST4.03ch02 3 CH_stu_290 23 71 0.00000469906
Vitis vinifera chr4 3 CH_vvi_395 11 23 0.000646256
Camellia sinensis var. sinensis Chr6 4 CH_camsi_712 13 32 0.000334975
Lonicera japonica GWHAAZE00000009 4 CH_lonja_265 16 35 0.000000695663
Magnolia biondii Chr07 4 CH_mbi_286 12 23 0.00000168834
Nicotiana tabacum Nitab4.5_0000016 4 CH_nta_64 10 15 0.0000171245
Oryza sativa ssp. japonica chr07 4 CH_osa_266 9 11 0.0000390349
Solanum pennellii Spenn-ch04 4 CH_spe_225 20 79 0.0000119185
Solanum pennellii Spenn-ch08 4 CH_spe_226 20 79 0.0000119185
Solanum tuberosum ST4.03ch02 4 CH_stu_290 23 71 0.00000469906
Vitis vinifera chr4 4 CH_vvi_395 11 23 0.000646256

Available child term results

Ontology identifier Description Number of clusters
GO:0000122 negative regulation of transcription by RNA polymerase II 14
GO:0000183 rDNA heterochromatin assembly 16
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay 18
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: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:0009616 RNAi-mediated antiviral immune response 4
GO:0010495 long-distance posttranscriptional gene silencing 2
GO:0010608 posttranscriptional regulation of gene expression 6
GO:0010628 positive regulation of gene expression 4
GO:0010629 negative regulation of gene expression 2
GO:0010767 regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage 4
GO:0010964 regulation of heterochromatin assembly by small RNA 4
GO:0016458 gene silencing 4
GO:0017183 peptidyl-diphthamide biosynthetic process from peptidyl-histidine 18
GO:0030422 production of siRNA involved in RNA interference 2
GO:0031047 gene silencing by RNA 4
GO:0031054 pre-miRNA processing 2
GO:0031087 deadenylation-independent decapping of nuclear-transcribed mRNA 30
GO:0031508 pericentric heterochromatin assembly 18
GO:0031935 regulation of chromatin silencing 8
GO:0031937 positive regulation of chromatin silencing 14
GO:0032055 negative regulation of translation in response to stress 2
GO:0032784 regulation of DNA-templated transcription, elongation 14
GO:0032786 positive regulation of DNA-templated transcription, elongation 8
GO:0032922 circadian regulation of gene expression 2
GO:0032968 positive regulation of transcription elongation from RNA polymerase II promoter 32
GO:0034243 regulation of transcription elongation from RNA polymerase II promoter 2
GO:0035194 post-transcriptional gene silencing by RNA 2
GO:0035195 gene silencing by miRNA 4
GO:0035196 production of miRNAs involved in gene silencing by miRNA 4
GO:0035278 miRNA mediated inhibition of translation 56
GO:0035280 miRNA loading onto RISC involved in gene silencing by miRNA 4
GO:0040029 regulation of gene expression, epigenetic 4
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:0045014 carbon catabolite repression of transcription by glucose 2
GO:0045727 positive regulation of translation 18
GO:0045814 negative regulation of gene expression, epigenetic 2
GO:0045815 positive regulation of gene expression, epigenetic 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: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:0051091 positive regulation of DNA-binding transcription factor activity 6
GO:0051214 RNAi-mediated antiviral immunity against RNA virus 4
GO:0060149 negative regulation of posttranscriptional gene silencing 2
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:0060966 regulation of gene silencing by RNA 2
GO:0060968 regulation of gene silencing 4
GO:0061158 3'-UTR-mediated mRNA destabilization 4
GO:0070481 nuclear-transcribed mRNA catabolic process, non-stop decay 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:0070966 nuclear-transcribed mRNA catabolic process, no-go decay 26
GO:0071049 nuclear retention of pre-mRNA with aberrant 3'-ends at the site of transcription 2
GO:0072344 rescue of stalled ribosome 12
GO:0080149 sucrose induced translational repression 2
GO:0080188 gene silencing by RNA-directed DNA methylation 42
GO:0090065 regulation of production of siRNA involved in RNA interference 16
GO:0090309 positive regulation of DNA methylation-dependent heterochromatin assembly 2
GO:0097167 circadian regulation of translation 4
GO:1900151 regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay 2
GO:1900368 regulation of RNA interference 2
GO:1900369 negative regulation of RNA interference 4
GO:1900370 positive regulation of RNA interference 22
GO:1901407 regulation of phosphorylation of RNA polymerase II C-terminal domain 2
GO:2000143 negative regulation of DNA-templated transcription, initiation 48
GO:2000232 regulation of rRNA processing 10
GO:2000234 positive regulation of rRNA processing 8
GO:2000636 positive regulation of primary miRNA processing 6

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