Coexpression cluster: Cluster_261 (Oryza sativa HCCA coexpression clusters - v0.2 (X-meeting 2023))

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Average Expression Profile

Enriched GO Terms (corrected p-value < 0.05) (download table)
ID Label % in cluster Enrichment log2 p-value Corrected p-value
GO:0140513 nuclear protein-containing complex 13.73% (21/153) 4.58 0.0 0.0
GO:0090304 nucleic acid metabolic process 20.26% (31/153) 2.97 0.0 0.0
GO:0032991 protein-containing complex 20.92% (32/153) 2.91 0.0 0.0
GO:0016070 RNA metabolic process 16.99% (26/153) 3.26 0.0 0.0
GO:0006139 nucleobase-containing compound metabolic process 21.57% (33/153) 2.72 0.0 0.0
GO:0006396 RNA processing 12.42% (19/153) 3.88 0.0 0.0
GO:0046483 heterocycle metabolic process 21.57% (33/153) 2.59 0.0 0.0
GO:0003676 nucleic acid binding 28.1% (43/153) 2.11 0.0 0.0
GO:0006725 cellular aromatic compound metabolic process 21.57% (33/153) 2.56 0.0 0.0
GO:1901360 organic cyclic compound metabolic process 21.57% (33/153) 2.53 0.0 0.0
GO:0034641 cellular nitrogen compound metabolic process 22.88% (35/153) 2.36 0.0 0.0
GO:0003723 RNA binding 15.03% (23/153) 3.02 0.0 0.0
GO:0005643 nuclear pore 3.92% (6/153) 6.44 0.0 0.0
GO:0005575 cellular_component 25.49% (39/153) 1.61 0.0 0.0
GO:0003674 molecular_function 67.32% (103/153) 0.66 0.0 0.0
GO:0043170 macromolecule metabolic process 29.41% (45/153) 1.38 0.0 0.0
GO:0008380 RNA splicing 5.23% (8/153) 4.54 0.0 0.0
GO:0017056 structural constituent of nuclear pore 3.27% (5/153) 6.43 0.0 0.0
GO:0006807 nitrogen compound metabolic process 30.72% (47/153) 1.28 0.0 0.0
GO:0016071 mRNA metabolic process 5.88% (9/153) 4.01 0.0 0.0
GO:0005488 binding 49.02% (75/153) 0.85 0.0 0.0
GO:0006397 mRNA processing 5.23% (8/153) 4.12 0.0 1e-06
GO:0032259 methylation 4.58% (7/153) 4.39 0.0 1e-06
GO:0008170 N-methyltransferase activity 3.27% (5/153) 5.62 0.0 1e-06
GO:0140640 catalytic activity, acting on a nucleic acid 9.15% (14/153) 2.57 0.0 3e-06
GO:0009451 RNA modification 5.23% (8/153) 3.81 0.0 3e-06
GO:0008033 tRNA processing 3.92% (6/153) 4.6 0.0 4e-06
GO:0043414 macromolecule methylation 3.92% (6/153) 4.52 0.0 5e-06
GO:0097159 organic cyclic compound binding 32.03% (49/153) 1.02 0.0 8e-06
GO:0006399 tRNA metabolic process 4.58% (7/153) 3.88 1e-06 1e-05
GO:0044238 primary metabolic process 30.72% (47/153) 1.04 1e-06 1e-05
GO:0034470 ncRNA processing 4.58% (7/153) 3.83 1e-06 1.2e-05
GO:0034660 ncRNA metabolic process 5.23% (8/153) 3.43 1e-06 1.5e-05
GO:0044237 cellular metabolic process 24.84% (38/153) 1.16 1e-06 2.1e-05
GO:0008757 S-adenosylmethionine-dependent methyltransferase activity 3.27% (5/153) 4.7 1e-06 2.2e-05
GO:0008276 protein methyltransferase activity 2.61% (4/153) 5.52 2e-06 2.5e-05
GO:0008152 metabolic process 32.68% (50/153) 0.94 2e-06 2.7e-05
GO:0018216 peptidyl-arginine methylation 1.96% (3/153) 6.69 3e-06 3.6e-05
GO:0018195 peptidyl-arginine modification 1.96% (3/153) 6.69 3e-06 3.6e-05
GO:0140098 catalytic activity, acting on RNA 6.54% (10/153) 2.75 3e-06 3.9e-05
GO:0009987 cellular process 32.03% (49/153) 0.93 3e-06 3.9e-05
GO:0016273 arginine N-methyltransferase activity 1.96% (3/153) 6.52 4e-06 4.8e-05
GO:0016274 protein-arginine N-methyltransferase activity 1.96% (3/153) 6.52 4e-06 4.8e-05
GO:0071704 organic substance metabolic process 30.72% (47/153) 0.94 4e-06 5.3e-05
GO:0000398 mRNA splicing, via spliceosome 3.27% (5/153) 4.3 6e-06 7e-05
GO:0000377 RNA splicing, via transesterification reactions with bulged adenosine as nucleophile 3.27% (5/153) 4.16 9e-06 0.00011
GO:0000375 RNA splicing, via transesterification reactions 3.27% (5/153) 4.09 1.2e-05 0.000137
GO:0008150 biological_process 45.1% (69/153) 0.64 1.5e-05 0.000162
GO:0006400 tRNA modification 2.61% (4/153) 4.71 1.7e-05 0.000183
GO:0018193 peptidyl-amino acid modification 3.27% (5/153) 3.97 1.8e-05 0.000194
GO:0006913 nucleocytoplasmic transport 2.61% (4/153) 4.58 2.4e-05 0.000253
GO:0120114 Sm-like protein family complex 1.96% (3/153) 5.69 2.5e-05 0.000261
GO:0051169 nuclear transport 2.61% (4/153) 4.52 2.9e-05 0.000289
GO:0003684 damaged DNA binding 1.96% (3/153) 5.6 3.1e-05 0.000304
GO:0006289 nucleotide-excision repair 1.96% (3/153) 5.44 4.3e-05 0.000423
GO:0008168 methyltransferase activity 4.58% (7/153) 2.82 6.7e-05 0.000639
GO:1990904 ribonucleoprotein complex 3.92% (6/153) 3.11 7.6e-05 0.000716
GO:0016886 ligase activity, forming phosphoric ester bonds 1.31% (2/153) 7.11 7.8e-05 0.000721
GO:0016741 transferase activity, transferring one-carbon groups 4.58% (7/153) 2.74 9.5e-05 0.000864
GO:0000178 exosome (RNase complex) 1.31% (2/153) 6.79 0.00013 0.001159
GO:0022618 protein-RNA complex assembly 1.96% (3/153) 4.79 0.000177 0.001553
GO:1905354 exoribonuclease complex 1.31% (2/153) 6.52 0.000194 0.001601
GO:0005849 mRNA cleavage factor complex 1.31% (2/153) 6.52 0.000194 0.001601
GO:0006378 mRNA polyadenylation 1.31% (2/153) 6.52 0.000194 0.001601
GO:1902494 catalytic complex 4.58% (7/153) 2.58 0.000189 0.00163
GO:0001510 RNA methylation 1.96% (3/153) 4.69 0.000215 0.001744
GO:0071826 protein-RNA complex organization 1.96% (3/153) 4.56 0.000281 0.002249
GO:0006479 protein methylation 1.96% (3/153) 4.52 0.000306 0.002376
GO:0008213 protein alkylation 1.96% (3/153) 4.52 0.000306 0.002376
GO:0009057 macromolecule catabolic process 3.92% (6/153) 2.7 0.000346 0.002652
GO:0006406 mRNA export from nucleus 1.31% (2/153) 6.11 0.000361 0.002685
GO:0051028 mRNA transport 1.31% (2/153) 6.11 0.000361 0.002685
GO:0016874 ligase activity 3.27% (5/153) 3.03 0.000394 0.002895
GO:0140101 catalytic activity, acting on a tRNA 2.61% (4/153) 3.49 0.000461 0.003339
GO:0030163 protein catabolic process 1.96% (3/153) 4.3 0.000484 0.003459
GO:0005634 nucleus 4.58% (7/153) 2.32 0.000549 0.003874
GO:0090066 regulation of anatomical structure size 1.31% (2/153) 5.65 0.000703 0.004488
GO:0032535 regulation of cellular component size 1.31% (2/153) 5.65 0.000703 0.004488
GO:0006405 RNA export from nucleus 1.31% (2/153) 5.65 0.000703 0.004488
GO:0046036 CTP metabolic process 1.31% (2/153) 5.65 0.000703 0.004488
GO:0006241 CTP biosynthetic process 1.31% (2/153) 5.65 0.000703 0.004488
GO:0009208 pyrimidine ribonucleoside triphosphate metabolic process 1.31% (2/153) 5.65 0.000703 0.004488
GO:0009209 pyrimidine ribonucleoside triphosphate biosynthetic process 1.31% (2/153) 5.65 0.000703 0.004488
GO:0009148 pyrimidine nucleoside triphosphate biosynthetic process 1.31% (2/153) 5.65 0.000703 0.004488
GO:0031124 mRNA 3'-end processing 1.31% (2/153) 5.52 0.000842 0.00496
GO:0030488 tRNA methylation 1.31% (2/153) 5.52 0.000842 0.00496
GO:0050657 nucleic acid transport 1.31% (2/153) 5.52 0.000842 0.00496
GO:0042393 histone binding 1.31% (2/153) 5.52 0.000842 0.00496
GO:0009147 pyrimidine nucleoside triphosphate metabolic process 1.31% (2/153) 5.52 0.000842 0.00496
GO:0051236 establishment of RNA localization 1.31% (2/153) 5.52 0.000842 0.00496
GO:0050658 RNA transport 1.31% (2/153) 5.52 0.000842 0.00496
GO:0009220 pyrimidine ribonucleotide biosynthetic process 1.31% (2/153) 5.41 0.000993 0.005722
GO:0009218 pyrimidine ribonucleotide metabolic process 1.31% (2/153) 5.41 0.000993 0.005722
GO:0005198 structural molecule activity 4.58% (7/153) 2.16 0.001045 0.005958
GO:0030532 small nuclear ribonucleoprotein complex 1.31% (2/153) 5.3 0.001155 0.006451
GO:0000387 spliceosomal snRNP assembly 1.31% (2/153) 5.3 0.001155 0.006451
GO:0043933 protein-containing complex organization 3.27% (5/153) 2.63 0.001342 0.007342
GO:0034708 methyltransferase complex 1.31% (2/153) 5.2 0.00133 0.00735
GO:0071840 cellular component organization or biogenesis 5.88% (9/153) 1.74 0.001607 0.008698
GO:0006281 DNA repair 3.27% (5/153) 2.57 0.001629 0.008731
GO:0046907 intracellular transport 3.27% (5/153) 2.55 0.001755 0.009314
GO:0051649 establishment of localization in cell 3.27% (5/153) 2.53 0.001821 0.009569
GO:0006974 DNA damage response 3.27% (5/153) 2.52 0.001888 0.009733
GO:0065003 protein-containing complex assembly 2.61% (4/153) 2.95 0.001879 0.00978
GO:0051168 nuclear export 1.31% (2/153) 4.86 0.002146 0.010953
GO:0043632 modification-dependent macromolecule catabolic process 2.61% (4/153) 2.83 0.002517 0.012493
GO:0019941 modification-dependent protein catabolic process 2.61% (4/153) 2.83 0.002517 0.012493
GO:0006511 ubiquitin-dependent protein catabolic process 2.61% (4/153) 2.83 0.002517 0.012493
GO:0043227 membrane-bounded organelle 4.58% (7/153) 1.91 0.002821 0.013744
GO:0043231 intracellular membrane-bounded organelle 4.58% (7/153) 1.91 0.002821 0.013744
GO:0031123 RNA 3'-end processing 1.31% (2/153) 4.65 0.002878 0.013897
GO:0140657 ATP-dependent activity 4.58% (7/153) 1.84 0.003658 0.014853
GO:0051716 cellular response to stimulus 3.27% (5/153) 2.29 0.003716 0.014864
GO:0106050 tRNA 2'-O-methyltransferase activity 0.65% (1/153) 8.11 0.003627 0.014953
GO:0080009 mRNA methylation 0.65% (1/153) 8.11 0.003627 0.014953
GO:0062105 RNA 2'-O-methyltransferase activity 0.65% (1/153) 8.11 0.003627 0.014953
GO:0000149 SNARE binding 0.65% (1/153) 8.11 0.003627 0.014953
GO:0019905 syntaxin binding 0.65% (1/153) 8.11 0.003627 0.014953
GO:0019211 phosphatase activator activity 0.65% (1/153) 8.11 0.003627 0.014953
GO:0001055 RNA polymerase II activity 0.65% (1/153) 8.11 0.003627 0.014953
GO:0045739 positive regulation of DNA repair 0.65% (1/153) 8.11 0.003627 0.014953
GO:0003972 RNA ligase (ATP) activity 0.65% (1/153) 8.11 0.003627 0.014953
GO:0005682 U5 snRNP 0.65% (1/153) 8.11 0.003627 0.014953
GO:0051054 positive regulation of DNA metabolic process 0.65% (1/153) 8.11 0.003627 0.014953
GO:0000350 generation of catalytic spliceosome for second transesterification step 0.65% (1/153) 8.11 0.003627 0.014953
GO:0016556 mRNA modification 0.65% (1/153) 8.11 0.003627 0.014953
GO:0008452 RNA ligase activity 0.65% (1/153) 8.11 0.003627 0.014953
GO:0046537 2,3-bisphosphoglycerate-independent phosphoglycerate mutase activity 0.65% (1/153) 8.11 0.003627 0.014953
GO:0051603 proteolysis involved in protein catabolic process 2.61% (4/153) 2.68 0.003655 0.014953
GO:0005681 spliceosomal complex 1.31% (2/153) 4.46 0.003711 0.014955
GO:0033554 cellular response to stress 3.27% (5/153) 2.35 0.003186 0.015249
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process 1.31% (2/153) 4.41 0.004011 0.015691
GO:0010498 proteasomal protein catabolic process 1.31% (2/153) 4.41 0.004011 0.015691
GO:0022613 ribonucleoprotein complex biogenesis 1.31% (2/153) 4.41 0.004011 0.015691
GO:0004386 helicase activity 2.61% (4/153) 2.71 0.003361 0.015941
GO:0006221 pyrimidine nucleotide biosynthetic process 1.31% (2/153) 4.52 0.003422 0.01595
GO:0006220 pyrimidine nucleotide metabolic process 1.31% (2/153) 4.52 0.003422 0.01595
GO:0008173 RNA methyltransferase activity 1.31% (2/153) 4.25 0.004975 0.019183
GO:0043412 macromolecule modification 11.11% (17/153) 1.0 0.004953 0.019237
GO:0005515 protein binding 16.99% (26/153) 0.76 0.005289 0.020248
GO:0022607 cellular component assembly 2.61% (4/153) 2.51 0.005487 0.020857
GO:0070552 BRISC complex 0.65% (1/153) 7.11 0.00724 0.023377
GO:0005847 mRNA cleavage and polyadenylation specificity factor complex 0.65% (1/153) 7.11 0.00724 0.023377
GO:0043564 Ku70:Ku80 complex 0.65% (1/153) 7.11 0.00724 0.023377
GO:0070531 BRCA1-A complex 0.65% (1/153) 7.11 0.00724 0.023377
GO:0006282 regulation of DNA repair 0.65% (1/153) 7.11 0.00724 0.023377
GO:0008479 tRNA-guanosine(34) queuine transglycosylase activity 0.65% (1/153) 7.11 0.00724 0.023377
GO:0018206 peptidyl-methionine modification 0.65% (1/153) 7.11 0.00724 0.023377
GO:0032299 ribonuclease H2 complex 0.65% (1/153) 7.11 0.00724 0.023377
GO:0017196 N-terminal peptidyl-methionine acetylation 0.65% (1/153) 7.11 0.00724 0.023377
GO:0034518 RNA cap binding complex 0.65% (1/153) 7.11 0.00724 0.023377
GO:0005846 nuclear cap binding complex 0.65% (1/153) 7.11 0.00724 0.023377
GO:0034715 pICln-Sm protein complex 0.65% (1/153) 7.11 0.00724 0.023377
GO:0008139 nuclear localization sequence binding 0.65% (1/153) 7.11 0.00724 0.023377
GO:0000469 obsolete cleavage involved in rRNA processing 0.65% (1/153) 7.11 0.00724 0.023377
GO:0048024 regulation of mRNA splicing, via spliceosome 0.65% (1/153) 7.11 0.00724 0.023377
GO:0008361 regulation of cell size 0.65% (1/153) 7.11 0.00724 0.023377
GO:0034709 methylosome 0.65% (1/153) 7.11 0.00724 0.023377
GO:0043484 regulation of RNA splicing 0.65% (1/153) 7.11 0.00724 0.023377
GO:0031499 TRAMP complex 0.65% (1/153) 7.11 0.00724 0.023377
GO:0000381 regulation of alternative mRNA splicing, via spliceosome 0.65% (1/153) 7.11 0.00724 0.023377
GO:0000339 RNA cap binding 0.65% (1/153) 7.11 0.00724 0.023377
GO:0006884 cell volume homeostasis 0.65% (1/153) 7.11 0.00724 0.023377
GO:0005665 RNA polymerase II, core complex 0.65% (1/153) 7.11 0.00724 0.023377
GO:0043229 intracellular organelle 5.88% (9/153) 1.38 0.008119 0.025903
GO:0043226 organelle 5.88% (9/153) 1.38 0.008119 0.025903
GO:0051641 cellular localization 3.27% (5/153) 2.08 0.006986 0.026371
GO:0019843 rRNA binding 1.31% (2/153) 3.86 0.008432 0.02643
GO:0072527 pyrimidine-containing compound metabolic process 1.31% (2/153) 3.86 0.008432 0.02643
GO:0015931 nucleobase-containing compound transport 1.31% (2/153) 3.86 0.008432 0.02643
GO:0072528 pyrimidine-containing compound biosynthetic process 1.31% (2/153) 3.98 0.007188 0.026941
GO:0006259 DNA metabolic process 3.27% (5/153) 1.98 0.009209 0.028697
GO:0000394 RNA splicing, via endonucleolytic cleavage and ligation 0.65% (1/153) 6.52 0.01084 0.031408
GO:0006303 double-strand break repair via nonhomologous end joining 0.65% (1/153) 6.52 0.01084 0.031408
GO:0006474 N-terminal protein amino acid acetylation 0.65% (1/153) 6.52 0.01084 0.031408
GO:0000338 protein deneddylation 0.65% (1/153) 6.52 0.01084 0.031408
GO:0004596 peptide alpha-N-acetyltransferase activity 0.65% (1/153) 6.52 0.01084 0.031408
GO:0003910 DNA ligase (ATP) activity 0.65% (1/153) 6.52 0.01084 0.031408
GO:0003909 DNA ligase activity 0.65% (1/153) 6.52 0.01084 0.031408
GO:0016721 oxidoreductase activity, acting on superoxide radicals as acceptor 0.65% (1/153) 6.52 0.01084 0.031408
GO:0030041 actin filament polymerization 0.65% (1/153) 6.52 0.01084 0.031408
GO:0004784 superoxide dismutase activity 0.65% (1/153) 6.52 0.01084 0.031408
GO:0006388 tRNA splicing, via endonucleolytic cleavage and ligation 0.65% (1/153) 6.52 0.01084 0.031408
GO:0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity 0.65% (1/153) 6.52 0.01084 0.031408
GO:0016433 rRNA (adenine) methyltransferase activity 0.65% (1/153) 6.52 0.01084 0.031408
GO:0016043 cellular component organization 4.58% (7/153) 1.53 0.011205 0.032288
GO:1990234 transferase complex 1.96% (3/153) 2.59 0.013762 0.039237
GO:0006310 DNA recombination 1.31% (2/153) 3.49 0.013744 0.039394
GO:0106413 RNA dihydrouridine synthase activity 0.65% (1/153) 6.11 0.014428 0.039456
GO:0017150 tRNA dihydrouridine synthase activity 0.65% (1/153) 6.11 0.014428 0.039456
GO:0042274 ribosomal small subunit biogenesis 0.65% (1/153) 6.11 0.014428 0.039456
GO:0043527 tRNA methyltransferase complex 0.65% (1/153) 6.11 0.014428 0.039456
GO:0008180 COP9 signalosome 0.65% (1/153) 6.11 0.014428 0.039456
GO:0000930 gamma-tubulin complex 0.65% (1/153) 6.11 0.014428 0.039456
GO:0031515 tRNA (m1A) methyltransferase complex 0.65% (1/153) 6.11 0.014428 0.039456
GO:0008097 5S rRNA binding 0.65% (1/153) 6.11 0.014428 0.039456
GO:0003724 RNA helicase activity 1.31% (2/153) 3.43 0.014831 0.040148
GO:0008186 ATP-dependent activity, acting on RNA 1.31% (2/153) 3.43 0.014831 0.040148
GO:0065008 regulation of biological quality 1.31% (2/153) 3.35 0.016528 0.044296
GO:1901575 organic substance catabolic process 3.92% (6/153) 1.57 0.0165 0.044442
GO:0046051 UTP metabolic process 0.65% (1/153) 5.79 0.018003 0.044673
GO:0004550 nucleoside diphosphate kinase activity 0.65% (1/153) 5.79 0.018003 0.044673
GO:0006438 valyl-tRNA aminoacylation 0.65% (1/153) 5.79 0.018003 0.044673
GO:0006165 obsolete nucleoside diphosphate phosphorylation 0.65% (1/153) 5.79 0.018003 0.044673
GO:0046039 GTP metabolic process 0.65% (1/153) 5.79 0.018003 0.044673
GO:0006183 GTP biosynthetic process 0.65% (1/153) 5.79 0.018003 0.044673
GO:0006228 UTP biosynthetic process 0.65% (1/153) 5.79 0.018003 0.044673
GO:0051258 protein polymerization 0.65% (1/153) 5.79 0.018003 0.044673
GO:0050684 regulation of mRNA processing 0.65% (1/153) 5.79 0.018003 0.044673
GO:0004832 valine-tRNA ligase activity 0.65% (1/153) 5.79 0.018003 0.044673
GO:1903311 regulation of mRNA metabolic process 0.65% (1/153) 5.79 0.018003 0.044673
GO:0006366 transcription by RNA polymerase II 0.65% (1/153) 5.79 0.018003 0.044673
GO:0031365 N-terminal protein amino acid modification 0.65% (1/153) 5.79 0.018003 0.044673
GO:0009201 ribonucleoside triphosphate biosynthetic process 1.31% (2/153) 3.27 0.018304 0.045005
GO:0009142 nucleoside triphosphate biosynthetic process 1.31% (2/153) 3.27 0.018304 0.045005
GO:0003729 mRNA binding 1.31% (2/153) 3.33 0.017112 0.045631
GO:1901565 organonitrogen compound catabolic process 1.96% (3/153) 2.42 0.019066 0.046665
GO:0016866 intramolecular transferase activity 1.31% (2/153) 3.3 0.017704 0.046745
GO:0070646 protein modification by small protein removal 1.31% (2/153) 3.3 0.017704 0.046745
GO:0009056 catabolic process 3.92% (6/153) 1.51 0.019397 0.047258
Enriched Clades (corrected p-value < 0.05) (download table)
Clade % in cluster Enrichment log2 p-value Corrected p-value Gene Family Method
No enriched Clades found
Similar Clusters (download table)
Species Clustering Method Target Jaccard index Gene Family Method (for comparison) Actions
No similar clusters found
Sequences (153) (download table)

InterPro Domains

GO Terms

CAZYmes

Family Terms