co-expression network

GO Enrichment Analysis of Co-expressed Genes with

AT3G12270

GO-BP

GO-MF

GO-CC

Rank	GO Term	Adjusted P value
1	GO:0071034: CUT catabolic process	0.00E+00
2	GO:0000467: exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	0.00E+00
3	GO:0071049: nuclear retention of pre-mRNA with aberrant 3'-ends at the site of transcription	0.00E+00
4	GO:0039694: viral RNA genome replication	0.00E+00
5	GO:0090069: regulation of ribosome biogenesis	0.00E+00
6	GO:1990481: mRNA pseudouridine synthesis	0.00E+00
7	GO:0070476: rRNA (guanine-N7)-methylation	0.00E+00
8	GO:0051050: positive regulation of transport	0.00E+00
9	GO:0080180: 2-methylguanosine metabolic process	0.00E+00
10	GO:0043928: exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	0.00E+00
11	GO:0071035: nuclear polyadenylation-dependent rRNA catabolic process	0.00E+00
12	GO:0043137: DNA replication, removal of RNA primer	0.00E+00
13	GO:0000495: box H/ACA snoRNA 3'-end processing	0.00E+00
14	GO:0071038: nuclear polyadenylation-dependent tRNA catabolic process	0.00E+00
15	GO:0006364: rRNA processing	4.80E-18
16	GO:0000462: maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	2.02E-09
17	GO:0034475: U4 snRNA 3'-end processing	9.95E-07
18	GO:0000463: maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	9.95E-07
19	GO:0071051: polyadenylation-dependent snoRNA 3'-end processing	9.95E-07
20	GO:0000028: ribosomal small subunit assembly	1.22E-06
21	GO:0034427: nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5'	3.72E-06
22	GO:0009553: embryo sac development	6.73E-06
23	GO:0009561: megagametogenesis	4.45E-05
24	GO:0010501: RNA secondary structure unwinding	5.71E-05
25	GO:0042254: ribosome biogenesis	7.66E-05
26	GO:0000461: endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	1.42E-04
27	GO:0000447: endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	1.42E-04
28	GO:2000232: regulation of rRNA processing	1.42E-04
29	GO:0043985: histone H4-R3 methylation	1.42E-04
30	GO:0006407: rRNA export from nucleus	1.42E-04
31	GO:0071028: nuclear mRNA surveillance	1.42E-04
32	GO:0031120: snRNA pseudouridine synthesis	1.42E-04
33	GO:0000469: cleavage involved in rRNA processing	1.42E-04
34	GO:0031118: rRNA pseudouridine synthesis	1.42E-04
35	GO:0030490: maturation of SSU-rRNA	1.42E-04
36	GO:0010162: seed dormancy process	2.13E-04
37	GO:0009451: RNA modification	2.92E-04
38	GO:0031125: rRNA 3'-end processing	3.25E-04
39	GO:0045041: protein import into mitochondrial intermembrane space	3.25E-04
40	GO:0060149: negative regulation of posttranscriptional gene silencing	3.25E-04
41	GO:0034470: ncRNA processing	3.25E-04
42	GO:0016075: rRNA catabolic process	5.33E-04
43	GO:0045604: regulation of epidermal cell differentiation	5.33E-04
44	GO:0006421: asparaginyl-tRNA aminoacylation	5.33E-04
45	GO:0006412: translation	6.06E-04
46	GO:0009294: DNA mediated transformation	7.35E-04
47	GO:0007276: gamete generation	7.63E-04
48	GO:0051131: chaperone-mediated protein complex assembly	7.63E-04
49	GO:0016569: covalent chromatin modification	8.93E-04
50	GO:0042273: ribosomal large subunit biogenesis	1.01E-03
51	GO:0000460: maturation of 5.8S rRNA	1.01E-03
52	GO:1900864: mitochondrial RNA modification	1.01E-03
53	GO:0046345: abscisic acid catabolic process	1.01E-03
54	GO:0042274: ribosomal small subunit biogenesis	1.01E-03
55	GO:0000380: alternative mRNA splicing, via spliceosome	1.28E-03
56	GO:0009920: cell plate formation involved in plant-type cell wall biogenesis	1.57E-03
57	GO:0000741: karyogamy	1.57E-03
58	GO:0042026: protein refolding	1.88E-03
59	GO:0006458: 'de novo' protein folding	1.88E-03
60	GO:0030488: tRNA methylation	1.88E-03
61	GO:0048444: floral organ morphogenesis	1.88E-03
62	GO:0016444: somatic cell DNA recombination	1.88E-03
63	GO:0010077: maintenance of inflorescence meristem identity	1.88E-03
64	GO:0009396: folic acid-containing compound biosynthetic process	2.21E-03
65	GO:0006400: tRNA modification	2.21E-03
66	GO:0045995: regulation of embryonic development	2.21E-03
67	GO:0019827: stem cell population maintenance	2.56E-03
68	GO:0042255: ribosome assembly	2.56E-03
69	GO:0009880: embryonic pattern specification	2.93E-03
70	GO:0006261: DNA-dependent DNA replication	2.93E-03
71	GO:2000024: regulation of leaf development	3.31E-03
72	GO:0001708: cell fate specification	3.31E-03
73	GO:0000387: spliceosomal snRNP assembly	3.71E-03
74	GO:0035999: tetrahydrofolate interconversion	3.71E-03
75	GO:1900865: chloroplast RNA modification	3.71E-03
76	GO:0006349: regulation of gene expression by genetic imprinting	3.71E-03
77	GO:0030422: production of siRNA involved in RNA interference	4.12E-03
78	GO:0010582: floral meristem determinacy	4.99E-03
79	GO:0090351: seedling development	6.41E-03
80	GO:0010030: positive regulation of seed germination	6.41E-03
81	GO:0006396: RNA processing	7.24E-03
82	GO:0000027: ribosomal large subunit assembly	7.42E-03
83	GO:0009944: polarity specification of adaxial/abaxial axis	7.42E-03
84	GO:0051302: regulation of cell division	7.95E-03
85	GO:0006334: nucleosome assembly	8.49E-03
86	GO:0061077: chaperone-mediated protein folding	8.49E-03
87	GO:0006730: one-carbon metabolic process	9.05E-03
88	GO:0007005: mitochondrion organization	9.05E-03
89	GO:0009693: ethylene biosynthetic process	9.62E-03
90	GO:0009411: response to UV	9.62E-03
91	GO:0006284: base-excision repair	1.02E-02
92	GO:0009790: embryo development	1.03E-02
93	GO:0070417: cellular response to cold	1.08E-02
94	GO:0000413: protein peptidyl-prolyl isomerization	1.14E-02
95	GO:0009960: endosperm development	1.20E-02
96	GO:0010305: leaf vascular tissue pattern formation	1.20E-02
97	GO:0010197: polar nucleus fusion	1.20E-02
98	GO:0048825: cotyledon development	1.33E-02
99	GO:0046686: response to cadmium ion	1.88E-02
100	GO:0006457: protein folding	2.04E-02
101	GO:0008219: cell death	2.19E-02
102	GO:0000724: double-strand break repair via homologous recombination	2.51E-02
103	GO:0009853: photorespiration	2.59E-02
104	GO:0045892: negative regulation of transcription, DNA-templated	2.85E-02
105	GO:0009926: auxin polar transport	3.10E-02
106	GO:0032259: methylation	3.31E-02
107	GO:0000154: rRNA modification	3.37E-02
108	GO:0009793: embryo development ending in seed dormancy	3.37E-02
109	GO:0006281: DNA repair	3.46E-02
110	GO:0006260: DNA replication	3.55E-02
111	GO:0006417: regulation of translation	4.12E-02
112	GO:0042545: cell wall modification	4.82E-02

Rank	GO Term	Adjusted P value
1	GO:0016435: rRNA (guanine) methyltransferase activity	0.00E+00
2	GO:0048256: flap endonuclease activity	0.00E+00
3	GO:0016018: cyclosporin A binding	0.00E+00
4	GO:0003963: RNA-3'-phosphate cyclase activity	0.00E+00
5	GO:0003723: RNA binding	3.40E-19
6	GO:0000166: nucleotide binding	1.09E-12
7	GO:0030515: snoRNA binding	3.99E-09
8	GO:0008026: ATP-dependent helicase activity	1.24E-08
9	GO:0070181: small ribosomal subunit rRNA binding	3.72E-06
10	GO:0004004: ATP-dependent RNA helicase activity	9.58E-06
11	GO:0004407: histone deacetylase activity	2.11E-05
12	GO:0003735: structural constituent of ribosome	3.20E-05
13	GO:0004519: endonuclease activity	4.02E-05
14	GO:0004527: exonuclease activity	6.42E-05
15	GO:0042134: rRNA primary transcript binding	1.42E-04
16	GO:0001054: RNA polymerase I activity	2.49E-04
17	GO:0044183: protein binding involved in protein folding	2.49E-04
18	GO:0004477: methenyltetrahydrofolate cyclohydrolase activity	3.25E-04
19	GO:0043021: ribonucleoprotein complex binding	3.25E-04
20	GO:0004488: methylenetetrahydrofolate dehydrogenase (NADP+) activity	3.25E-04
21	GO:0017108: 5'-flap endonuclease activity	5.33E-04
22	GO:0004816: asparagine-tRNA ligase activity	5.33E-04
23	GO:0048027: mRNA 5'-UTR binding	7.63E-04
24	GO:0008409: 5'-3' exonuclease activity	1.01E-03
25	GO:0003676: nucleic acid binding	1.05E-03
26	GO:0019843: rRNA binding	1.27E-03
27	GO:0003689: DNA clamp loader activity	1.28E-03
28	GO:0003899: DNA-directed 5'-3' RNA polymerase activity	4.95E-03
29	GO:0001056: RNA polymerase III activity	4.99E-03
30	GO:0004521: endoribonuclease activity	4.99E-03
31	GO:0000175: 3'-5'-exoribonuclease activity	5.45E-03
32	GO:0009982: pseudouridine synthase activity	5.45E-03
33	GO:0051082: unfolded protein binding	7.04E-03
34	GO:0008408: 3'-5' exonuclease activity	8.49E-03
35	GO:0003713: transcription coactivator activity	1.20E-02
36	GO:0005524: ATP binding	1.33E-02
37	GO:0004518: nuclease activity	1.46E-02
38	GO:0003729: mRNA binding	1.76E-02
39	GO:0008168: methyltransferase activity	1.82E-02
40	GO:0003746: translation elongation factor activity	2.59E-02
41	GO:0000987: core promoter proximal region sequence-specific DNA binding	2.67E-02
42	GO:0042393: histone binding	2.84E-02
43	GO:0016787: hydrolase activity	3.01E-02
44	GO:0003755: peptidyl-prolyl cis-trans isomerase activity	3.46E-02
45	GO:0045330: aspartyl esterase activity	4.12E-02
46	GO:0030599: pectinesterase activity	4.72E-02

Rank	GO Term	Adjusted P value
1	GO:0019034: viral replication complex	0.00E+00
2	GO:0034457: Mpp10 complex	0.00E+00
3	GO:0034455: t-UTP complex	0.00E+00
4	GO:0034388: Pwp2p-containing subcomplex of 90S preribosome	0.00E+00
5	GO:0005730: nucleolus	3.10E-43
6	GO:0032040: small-subunit processome	2.12E-14
7	GO:0005634: nucleus	7.17E-10
8	GO:0080008: Cul4-RING E3 ubiquitin ligase complex	2.33E-08
9	GO:0030687: preribosome, large subunit precursor	7.93E-07
10	GO:0070545: PeBoW complex	9.95E-07
11	GO:0000177: cytoplasmic exosome (RNase complex)	9.95E-07
12	GO:0000176: nuclear exosome (RNase complex)	3.72E-06
13	GO:0022627: cytosolic small ribosomal subunit	5.21E-05
14	GO:0030688: preribosome, small subunit precursor	1.42E-04
15	GO:0030686: 90S preribosome	1.42E-04
16	GO:0005763: mitochondrial small ribosomal subunit	1.50E-04
17	GO:0005736: DNA-directed RNA polymerase I complex	1.50E-04
18	GO:0005654: nucleoplasm	1.56E-04
19	GO:0005759: mitochondrial matrix	2.41E-04
20	GO:0015935: small ribosomal subunit	6.19E-04
21	GO:0031429: box H/ACA snoRNP complex	7.63E-04
22	GO:0005663: DNA replication factor C complex	1.01E-03
23	GO:0031428: box C/D snoRNP complex	1.57E-03
24	GO:0016363: nuclear matrix	1.88E-03
25	GO:0034399: nuclear periphery	2.56E-03
26	GO:0005840: ribosome	2.68E-03
27	GO:0022626: cytosolic ribosome	3.10E-03
28	GO:0005666: DNA-directed RNA polymerase III complex	3.71E-03
29	GO:0015030: Cajal body	3.71E-03
30	GO:0019013: viral nucleocapsid	5.45E-03
31	GO:0005834: heterotrimeric G-protein complex	6.23E-03
32	GO:0043234: protein complex	6.91E-03
33	GO:0019898: extrinsic component of membrane	1.33E-02
34	GO:0005829: cytosol	1.70E-02
35	GO:0030529: intracellular ribonucleoprotein complex	1.81E-02
36	GO:0019005: SCF ubiquitin ligase complex	2.19E-02
37	GO:0015934: large ribosomal subunit	2.42E-02