co-expression network

GO Enrichment Analysis of Co-expressed Genes with

AT4G25730

GO-BP

GO-MF

GO-CC

Rank	GO Term	Adjusted P value
1	GO:0000463: maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	0.00E+00
2	GO:1990481: mRNA pseudouridine synthesis	0.00E+00
3	GO:0000466: maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	0.00E+00
4	GO:0051050: positive regulation of transport	0.00E+00
5	GO:0080180: 2-methylguanosine metabolic process	0.00E+00
6	GO:0043928: exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	0.00E+00
7	GO:0071035: nuclear polyadenylation-dependent rRNA catabolic process	0.00E+00
8	GO:0043137: DNA replication, removal of RNA primer	0.00E+00
9	GO:0090070: positive regulation of ribosome biogenesis	0.00E+00
10	GO:0031591: wybutosine biosynthetic process	0.00E+00
11	GO:0000495: box H/ACA snoRNA 3'-end processing	0.00E+00
12	GO:0071038: nuclear polyadenylation-dependent tRNA catabolic process	0.00E+00
13	GO:0071034: CUT catabolic process	0.00E+00
14	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
15	GO:0071049: nuclear retention of pre-mRNA with aberrant 3'-ends at the site of transcription	0.00E+00
16	GO:1901535: regulation of DNA demethylation	0.00E+00
17	GO:0071731: response to nitric oxide	0.00E+00
18	GO:0090069: regulation of ribosome biogenesis	0.00E+00
19	GO:0006364: rRNA processing	5.63E-19
20	GO:0000462: maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	1.34E-11
21	GO:0042254: ribosome biogenesis	3.19E-09
22	GO:0010501: RNA secondary structure unwinding	6.48E-08
23	GO:0009553: embryo sac development	1.53E-05
24	GO:0000460: maturation of 5.8S rRNA	2.45E-05
25	GO:0000028: ribosomal small subunit assembly	1.40E-04
26	GO:2000232: regulation of rRNA processing	1.80E-04
27	GO:0043985: histone H4-R3 methylation	1.80E-04
28	GO:0006169: adenosine salvage	1.80E-04
29	GO:0031120: snRNA pseudouridine synthesis	1.80E-04
30	GO:0000469: cleavage involved in rRNA processing	1.80E-04
31	GO:0031118: rRNA pseudouridine synthesis	1.80E-04
32	GO:0017183: peptidyl-diphthamide biosynthetic process from peptidyl-histidine	1.80E-04
33	GO:0030490: maturation of SSU-rRNA	1.80E-04
34	GO:0072684: mitochondrial tRNA 3'-trailer cleavage, endonucleolytic	1.80E-04
35	GO:1902182: shoot apical meristem development	1.80E-04
36	GO:0010162: seed dormancy process	3.00E-04
37	GO:0080009: mRNA methylation	4.05E-04
38	GO:0045041: protein import into mitochondrial intermembrane space	4.05E-04
39	GO:0071051: polyadenylation-dependent snoRNA 3'-end processing	4.05E-04
40	GO:0060149: negative regulation of posttranscriptional gene silencing	4.05E-04
41	GO:0034470: ncRNA processing	4.05E-04
42	GO:0034475: U4 snRNA 3'-end processing	4.05E-04
43	GO:0045604: regulation of epidermal cell differentiation	6.61E-04
44	GO:0042780: tRNA 3'-end processing	6.61E-04
45	GO:0034414: tRNA 3'-trailer cleavage, endonucleolytic	6.61E-04
46	GO:0034427: nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5'	6.61E-04
47	GO:0009944: polarity specification of adaxial/abaxial axis	7.06E-04
48	GO:0007005: mitochondrion organization	9.27E-04
49	GO:0051131: chaperone-mediated protein complex assembly	9.45E-04
50	GO:0007276: gamete generation	9.45E-04
51	GO:0009294: DNA mediated transformation	1.01E-03
52	GO:0009561: megagametogenesis	1.09E-03
53	GO:0006479: protein methylation	1.25E-03
54	GO:1900864: mitochondrial RNA modification	1.25E-03
55	GO:0046345: abscisic acid catabolic process	1.25E-03
56	GO:0042273: ribosomal large subunit biogenesis	1.25E-03
57	GO:0048825: cotyledon development	1.57E-03
58	GO:0044209: AMP salvage	1.59E-03
59	GO:0000380: alternative mRNA splicing, via spliceosome	1.59E-03
60	GO:0010375: stomatal complex patterning	1.59E-03
61	GO:0000741: karyogamy	1.96E-03
62	GO:0000470: maturation of LSU-rRNA	1.96E-03
63	GO:0009920: cell plate formation involved in plant-type cell wall biogenesis	1.96E-03
64	GO:0042026: protein refolding	2.35E-03
65	GO:0006458: 'de novo' protein folding	2.35E-03
66	GO:0048444: floral organ morphogenesis	2.35E-03
67	GO:0010077: maintenance of inflorescence meristem identity	2.35E-03
68	GO:0006400: tRNA modification	2.77E-03
69	GO:0010374: stomatal complex development	2.77E-03
70	GO:0045995: regulation of embryonic development	2.77E-03
71	GO:0009451: RNA modification	2.98E-03
72	GO:0042255: ribosome assembly	3.21E-03
73	GO:0001522: pseudouridine synthesis	3.21E-03
74	GO:0006261: DNA-dependent DNA replication	3.67E-03
75	GO:0044030: regulation of DNA methylation	3.67E-03
76	GO:0009880: embryonic pattern specification	3.67E-03
77	GO:2000024: regulation of leaf development	4.15E-03
78	GO:0016573: histone acetylation	4.65E-03
79	GO:0000387: spliceosomal snRNP assembly	4.65E-03
80	GO:1900865: chloroplast RNA modification	4.65E-03
81	GO:0006260: DNA replication	6.20E-03
82	GO:0010582: floral meristem determinacy	6.28E-03
83	GO:0051301: cell division	6.28E-03
84	GO:2000012: regulation of auxin polar transport	6.86E-03
85	GO:0010030: positive regulation of seed germination	8.08E-03
86	GO:0006457: protein folding	8.16E-03
87	GO:0045892: negative regulation of transcription, DNA-templated	8.50E-03
88	GO:0016569: covalent chromatin modification	9.25E-03
89	GO:0030150: protein import into mitochondrial matrix	9.37E-03
90	GO:0006406: mRNA export from nucleus	9.37E-03
91	GO:0051302: regulation of cell division	1.00E-02
92	GO:0006396: RNA processing	1.01E-02
93	GO:0032259: methylation	1.03E-02
94	GO:0061077: chaperone-mediated protein folding	1.07E-02
95	GO:0006412: translation	1.13E-02
96	GO:0000398: mRNA splicing, via spliceosome	1.14E-02
97	GO:0009693: ethylene biosynthetic process	1.22E-02
98	GO:0009411: response to UV	1.22E-02
99	GO:0006284: base-excision repair	1.29E-02
100	GO:0070417: cellular response to cold	1.37E-02
101	GO:0000413: protein peptidyl-prolyl isomerization	1.44E-02
102	GO:0010197: polar nucleus fusion	1.52E-02
103	GO:0006342: chromatin silencing	1.52E-02
104	GO:0016032: viral process	1.85E-02
105	GO:0009793: embryo development ending in seed dormancy	1.91E-02
106	GO:0006974: cellular response to DNA damage stimulus	2.48E-02
107	GO:0016049: cell growth	2.68E-02
108	GO:0008219: cell death	2.77E-02
109	GO:0048527: lateral root development	3.08E-02
110	GO:0046686: response to cadmium ion	3.09E-02
111	GO:0048366: leaf development	3.11E-02
112	GO:0000154: rRNA modification	4.27E-02

Rank	GO Term	Adjusted P value
1	GO:0102522: tRNA 4-demethylwyosine alpha-amino-alpha-carboxypropyltransferase 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:0004164: diphthine synthase activity	0.00E+00
6	GO:0034062: 5'-3' RNA polymerase activity	0.00E+00
7	GO:0003723: RNA binding	2.02E-19
8	GO:0000166: nucleotide binding	4.10E-17
9	GO:0008026: ATP-dependent helicase activity	1.41E-09
10	GO:0030515: snoRNA binding	8.59E-09
11	GO:0004004: ATP-dependent RNA helicase activity	1.57E-08
12	GO:0043021: ribonucleoprotein complex binding	1.55E-06
13	GO:0070181: small ribosomal subunit rRNA binding	5.74E-06
14	GO:0003899: DNA-directed 5'-3' RNA polymerase activity	6.85E-06
15	GO:0004407: histone deacetylase activity	3.60E-05
16	GO:0004527: exonuclease activity	1.05E-04
17	GO:0004001: adenosine kinase activity	1.80E-04
18	GO:0042134: rRNA primary transcript binding	1.80E-04
19	GO:0016422: mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity	1.80E-04
20	GO:0001054: RNA polymerase I activity	3.48E-04
21	GO:0044183: protein binding involved in protein folding	3.48E-04
22	GO:0016891: endoribonuclease activity, producing 5'-phosphomonoesters	4.05E-04
23	GO:0004519: endonuclease activity	5.49E-04
24	GO:0042781: 3'-tRNA processing endoribonuclease activity	6.61E-04
25	GO:0017108: 5'-flap endonuclease activity	6.61E-04
26	GO:0008168: methyltransferase activity	8.75E-04
27	GO:0048027: mRNA 5'-UTR binding	9.45E-04
28	GO:0008409: 5'-3' exonuclease activity	1.25E-03
29	GO:0003735: structural constituent of ribosome	1.40E-03
30	GO:0003689: DNA clamp loader activity	1.59E-03
31	GO:0003729: mRNA binding	2.61E-03
32	GO:0043022: ribosome binding	3.21E-03
33	GO:0008173: RNA methyltransferase activity	3.67E-03
34	GO:0003746: translation elongation factor activity	3.98E-03
35	GO:0001055: RNA polymerase II activity	4.65E-03
36	GO:0000049: tRNA binding	6.28E-03
37	GO:0004521: endoribonuclease activity	6.28E-03
38	GO:0001056: RNA polymerase III activity	6.28E-03
39	GO:0005524: ATP binding	6.51E-03
40	GO:0003676: nucleic acid binding	6.82E-03
41	GO:0003725: double-stranded RNA binding	6.86E-03
42	GO:0009982: pseudouridine synthase activity	6.86E-03
43	GO:0003887: DNA-directed DNA polymerase activity	8.71E-03
44	GO:0043130: ubiquitin binding	9.37E-03
45	GO:0051082: unfolded protein binding	9.83E-03
46	GO:0003924: GTPase activity	1.09E-02
47	GO:0005525: GTP binding	1.17E-02
48	GO:0019843: rRNA binding	1.23E-02
49	GO:0003713: transcription coactivator activity	1.52E-02
50	GO:0016787: hydrolase activity	1.67E-02
51	GO:0004518: nuclease activity	1.85E-02
52	GO:0016887: ATPase activity	1.90E-02
53	GO:0004721: phosphoprotein phosphatase activity	2.58E-02
54	GO:0008757: S-adenosylmethionine-dependent methyltransferase activity	2.68E-02
55	GO:0050897: cobalt ion binding	3.08E-02
56	GO:0003697: single-stranded DNA binding	3.28E-02
57	GO:0000987: core promoter proximal region sequence-specific DNA binding	3.39E-02
58	GO:0042393: histone binding	3.60E-02
59	GO:0003755: peptidyl-prolyl cis-trans isomerase activity	4.39E-02
60	GO:0003690: double-stranded DNA binding	4.98E-02

Rank	GO Term	Adjusted P value
1	GO:0034457: Mpp10 complex	0.00E+00
2	GO:0034455: t-UTP complex	0.00E+00
3	GO:0034388: Pwp2p-containing subcomplex of 90S preribosome	0.00E+00
4	GO:0036396: MIS complex	0.00E+00
5	GO:0070545: PeBoW complex	0.00E+00
6	GO:0005730: nucleolus	4.34E-45
7	GO:0032040: small-subunit processome	7.40E-14
8	GO:0005634: nucleus	4.30E-12
9	GO:0080008: Cul4-RING E3 ubiquitin ligase complex	1.96E-10
10	GO:0030687: preribosome, large subunit precursor	1.44E-06
11	GO:0005654: nucleoplasm	2.64E-05
12	GO:0005834: heterotrimeric G-protein complex	1.60E-04
13	GO:0030688: preribosome, small subunit precursor	1.80E-04
14	GO:0005763: mitochondrial small ribosomal subunit	2.13E-04
15	GO:0005736: DNA-directed RNA polymerase I complex	2.13E-04
16	GO:0000177: cytoplasmic exosome (RNase complex)	4.05E-04
17	GO:0000176: nuclear exosome (RNase complex)	6.61E-04
18	GO:0005618: cell wall	7.25E-04
19	GO:0031429: box H/ACA snoRNP complex	9.45E-04
20	GO:0005663: DNA replication factor C complex	1.25E-03
21	GO:0005829: cytosol	1.64E-03
22	GO:0031428: box C/D snoRNP complex	1.96E-03
23	GO:0016363: nuclear matrix	2.35E-03
24	GO:0005759: mitochondrial matrix	2.57E-03
25	GO:0009506: plasmodesma	2.71E-03
26	GO:0034399: nuclear periphery	3.21E-03
27	GO:0022627: cytosolic small ribosomal subunit	4.14E-03
28	GO:0005666: DNA-directed RNA polymerase III complex	4.65E-03
29	GO:0015030: Cajal body	4.65E-03
30	GO:0000418: DNA-directed RNA polymerase IV complex	5.18E-03
31	GO:0005665: DNA-directed RNA polymerase II, core complex	6.28E-03
32	GO:0019013: viral nucleocapsid	6.86E-03
33	GO:0005681: spliceosomal complex	8.16E-03
34	GO:0005747: mitochondrial respiratory chain complex I	8.42E-03
35	GO:0000419: DNA-directed RNA polymerase V complex	8.71E-03
36	GO:0042651: thylakoid membrane	1.00E-02
37	GO:0015935: small ribosomal subunit	1.07E-02
38	GO:0005744: mitochondrial inner membrane presequence translocase complex	1.29E-02
39	GO:0019898: extrinsic component of membrane	1.68E-02
40	GO:0005840: ribosome	1.72E-02
41	GO:0030529: intracellular ribonucleoprotein complex	2.30E-02
42	GO:0015934: large ribosomal subunit	3.08E-02
43	GO:0022625: cytosolic large ribosomal subunit	3.44E-02
44	GO:0005774: vacuolar membrane	3.74E-02
45	GO:0005743: mitochondrial inner membrane	4.48E-02