Functional clusters

Information

  • Type Gene Ontology
  • Description gene expression

Cluster overview

Species Chromosome Experiment Cluster id Cluster size Number of genes E-value
Magnolia biondii Chr11 3 CH_mbi_510 17 45 0.000228788
Magnolia biondii Chr11 4 CH_mbi_510 17 45 0.000228788

Available child term results

Ontology identifier Description Number of clusters
GO:0000122 negative regulation of transcription by RNA polymerase II 14
GO:0000154 rRNA modification 10
GO:0000183 rDNA heterochromatin assembly 16
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay 18
GO:0000244 spliceosomal tri-snRNP complex assembly 20
GO:0000245 spliceosomal complex assembly 24
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:0000350 generation of catalytic spliceosome for second transesterification step 6
GO:0000354 cis assembly of pre-catalytic spliceosome 2
GO:0000372 Group I intron splicing 10
GO:0000373 Group II intron splicing 14
GO:0000375 RNA splicing, via transesterification reactions 4
GO:0000380 alternative mRNA splicing, via spliceosome 2
GO:0000381 regulation of alternative mRNA splicing, via spliceosome 4
GO:0000387 spliceosomal snRNP assembly 2
GO:0000394 RNA splicing, via endonucleolytic cleavage and ligation 2
GO:0000395 mRNA 5'-splice site recognition 2
GO:0000398 mRNA splicing, via spliceosome 20
GO:0000453 enzyme-directed rRNA 2'-O-methylation 2
GO:0000461 endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) 4
GO:0000462 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) 2
GO:0000463 maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) 8
GO:0000467 exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) 16
GO:0000469 cleavage involved in rRNA processing 2
GO:0000481 maturation of 5S rRNA 2
GO:0000488 maturation of LSU-rRNA from tetracistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 4.5S-rRNA, 5S-rRNA) 2
GO:0000495 box H/ACA RNA 3'-end processing 2
GO:0000963 mitochondrial RNA processing 6
GO:0000964 mitochondrial RNA 5'-end processing 10
GO:0000966 RNA 5'-end processing 24
GO:0001188 RNA polymerase I preinitiation complex assembly 8
GO:0001731 formation of translation preinitiation complex 14
GO:0002100 tRNA wobble adenosine to inosine editing 4
GO:0002103 endonucleolytic cleavage of tetracistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 4.5S-rRNA, 5S-rRNA) 4
GO:0002182 cytoplasmic translational elongation 20
GO:0002940 tRNA N2-guanine methylation 2
GO:0002943 tRNA dihydrouridine synthesis 24
GO:0002949 tRNA threonylcarbamoyladenosine modification 8
GO:0006342 chromatin silencing 16
GO:0006346 DNA methylation-dependent heterochromatin assembly 6
GO:0006348 chromatin silencing at telomere 6
GO:0006351 transcription, DNA-templated 10
GO:0006352 DNA-templated transcription, initiation 14
GO:0006353 DNA-templated transcription, termination 36
GO:0006355 regulation of transcription, DNA-templated 42
GO:0006357 regulation of transcription by RNA polymerase II 62
GO:0006360 transcription by RNA polymerase I 14
GO:0006364 rRNA processing 10
GO:0006367 transcription initiation from RNA polymerase II promoter 6
GO:0006368 transcription elongation from RNA polymerase II promoter 4
GO:0006369 termination of RNA polymerase II transcription 42
GO:0006370 7-methylguanosine mRNA capping 2
GO:0006376 mRNA splice site selection 8
GO:0006383 transcription by RNA polymerase III 10
GO:0006384 transcription initiation from RNA polymerase III promoter 2
GO:0006388 tRNA splicing, via endonucleolytic cleavage and ligation 8
GO:0006393 termination of mitochondrial transcription 2
GO:0006396 RNA processing 4
GO:0006397 mRNA processing 8
GO:0006400 tRNA modification 14
GO:0006406 mRNA export from nucleus 4
GO:0006412 translation 8
GO:0006413 translational initiation 8
GO:0006414 translational elongation 2
GO:0006415 translational termination 12
GO:0006417 regulation of translation 8
GO:0006418 tRNA aminoacylation for protein translation 14
GO:0006419 alanyl-tRNA aminoacylation 26
GO:0006420 arginyl-tRNA aminoacylation 24
GO:0006421 asparaginyl-tRNA aminoacylation 2
GO:0006422 aspartyl-tRNA aminoacylation 22
GO:0006423 cysteinyl-tRNA aminoacylation 2
GO:0006424 glutamyl-tRNA aminoacylation 8
GO:0006425 glutaminyl-tRNA aminoacylation 2
GO:0006426 glycyl-tRNA aminoacylation 24
GO:0006427 histidyl-tRNA aminoacylation 2
GO:0006428 isoleucyl-tRNA aminoacylation 6
GO:0006429 leucyl-tRNA aminoacylation 44
GO:0006430 lysyl-tRNA aminoacylation 16
GO:0006431 methionyl-tRNA aminoacylation 12
GO:0006432 phenylalanyl-tRNA aminoacylation 16
GO:0006433 prolyl-tRNA aminoacylation 28
GO:0006434 seryl-tRNA aminoacylation 24
GO:0006435 threonyl-tRNA aminoacylation 32
GO:0006436 tryptophanyl-tRNA aminoacylation 10
GO:0006437 tyrosyl-tRNA aminoacylation 4
GO:0006438 valyl-tRNA aminoacylation 54
GO:0006465 signal peptide processing 14
GO:0006624 vacuolar protein processing 18
GO:0006627 protein processing involved in protein targeting to mitochondrion 4
GO:0006990 positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response 6
GO:0008033 tRNA processing 2
GO:0008380 RNA splicing 16
GO:0008612 peptidyl-lysine modification to peptidyl-hypusine 20
GO:0009249 protein lipoylation 2
GO:0009299 mRNA transcription 4
GO:0009303 rRNA transcription 2
GO:0009452 7-methylguanosine RNA capping 10
GO:0009616 RNAi-mediated antiviral immune response 4
GO:0010468 regulation of gene expression 18
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:0015680 protein maturation by copper ion transfer 2
GO:0016180 snRNA processing 6
GO:0016458 gene silencing 4
GO:0016485 protein processing 4
GO:0016540 protein autoprocessing 18
GO:0016973 poly(A)+ mRNA export from nucleus 8
GO:0017183 peptidyl-diphthamide biosynthetic process from peptidyl-histidine 18
GO:0017196 N-terminal peptidyl-methionine acetylation 12
GO:0019988 charged-tRNA amino acid modification 12
GO:0030422 production of siRNA involved in RNA interference 2
GO:0030488 tRNA methylation 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:0031119 tRNA pseudouridine synthesis 10
GO:0031425 chloroplast RNA processing 2
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:0032543 mitochondrial translation 8
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:0034227 tRNA thio-modification 12
GO:0034243 regulation of transcription elongation from RNA polymerase II promoter 2
GO:0034414 tRNA 3'-trailer cleavage, endonucleolytic 4
GO:0034472 snRNA 3'-end processing 2
GO:0034477 U6 snRNA 3'-end processing 8
GO:0034982 mitochondrial protein processing 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:0035600 tRNA methylthiolation 2
GO:0040029 regulation of gene expression, epigenetic 4
GO:0042779 tRNA 3'-trailer cleavage 4
GO:0042793 plastid transcription 2
GO:0042794 plastid rRNA transcription 2
GO:0043144 sno(s)RNA processing 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:0045292 mRNA cis splicing, via spliceosome 22
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:0051123 RNA polymerase II preinitiation complex assembly 12
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:0070158 mitochondrial seryl-tRNA aminoacylation 2
GO:0070481 nuclear-transcribed mRNA catabolic process, non-stop decay 2
GO:0070829 heterochromatin maintenance 4
GO:0070897 transcription preinitiation complex assembly 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:0071076 RNA 3' uridylation 18
GO:0071586 CAAX-box protein processing 14
GO:0072344 rescue of stalled ribosome 12
GO:0072684 mitochondrial tRNA 3'-trailer cleavage, endonucleolytic 2
GO:0080149 sucrose induced translational repression 2
GO:0080178 5-carbamoylmethyl uridine residue modification 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:0090615 mitochondrial mRNA processing 10
GO:0090617 mitochondrial mRNA 5'-end processing 74
GO:0097167 circadian regulation of translation 4
GO:0097222 mitochondrial mRNA polyadenylation 6
GO:0097428 protein maturation by iron-sulfur cluster transfer 16
GO:0098789 pre-mRNA cleavage required for polyadenylation 2
GO:0101030 tRNA-guanine transglycosylation 2
GO:0106005 RNA 5'-cap (guanine-N7)-methylation 2
GO:0106035 protein maturation by [4Fe-4S] cluster transfer 6
GO:0140053 mitochondrial gene expression 2
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: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