co-expression network

GO Enrichment Analysis of Co-expressed Genes with

AT3G58660

GO-BP

GO-MF

GO-CC

Rank	GO Term	Adjusted P value
1	GO:0039694: viral RNA genome replication	0.00E+00
2	GO:0090069: regulation of ribosome biogenesis	0.00E+00
3	GO:0070476: rRNA (guanine-N7)-methylation	0.00E+00
4	GO:0006364: rRNA processing	1.69E-15
5	GO:0000462: maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	6.46E-10
6	GO:0000463: maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	5.13E-07
7	GO:0042254: ribosome biogenesis	2.51E-05
8	GO:0010501: RNA secondary structure unwinding	2.64E-05
9	GO:0009553: embryo sac development	4.19E-05
10	GO:0000028: ribosomal small subunit assembly	5.57E-05
11	GO:0000469: cleavage involved in rRNA processing	9.88E-05
12	GO:0017183: peptidyl-diphthamide biosynthetic process from peptidyl-histidine	9.88E-05
13	GO:0030490: maturation of SSU-rRNA	9.88E-05
14	GO:0072684: mitochondrial tRNA 3'-trailer cleavage, endonucleolytic	9.88E-05
15	GO:1902182: shoot apical meristem development	9.88E-05
16	GO:2000232: regulation of rRNA processing	9.88E-05
17	GO:0043985: histone H4-R3 methylation	9.88E-05
18	GO:0034470: ncRNA processing	2.32E-04
19	GO:0006421: asparaginyl-tRNA aminoacylation	3.86E-04
20	GO:0042780: tRNA 3'-end processing	3.86E-04
21	GO:0034414: tRNA 3'-trailer cleavage, endonucleolytic	3.86E-04
22	GO:0045604: regulation of epidermal cell differentiation	3.86E-04
23	GO:0009561: megagametogenesis	4.98E-04
24	GO:0007276: gamete generation	5.54E-04
25	GO:0006479: protein methylation	7.37E-04
26	GO:0046345: abscisic acid catabolic process	7.37E-04
27	GO:0042273: ribosomal large subunit biogenesis	7.37E-04
28	GO:0009790: embryo development	8.37E-04
29	GO:0009451: RNA modification	1.06E-03
30	GO:0001731: formation of translation preinitiation complex	1.14E-03
31	GO:0000741: karyogamy	1.14E-03
32	GO:0009793: embryo development ending in seed dormancy	1.19E-03
33	GO:0030488: tRNA methylation	1.36E-03
34	GO:0048444: floral organ morphogenesis	1.36E-03
35	GO:0016444: somatic cell DNA recombination	1.36E-03
36	GO:0010077: maintenance of inflorescence meristem identity	1.36E-03
37	GO:0045995: regulation of embryonic development	1.59E-03
38	GO:0051301: cell division	1.78E-03
39	GO:0001522: pseudouridine synthesis	1.84E-03
40	GO:0019827: stem cell population maintenance	1.84E-03
41	GO:0042255: ribosome assembly	1.84E-03
42	GO:0009880: embryonic pattern specification	2.10E-03
43	GO:2000024: regulation of leaf development	2.37E-03
44	GO:0001708: cell fate specification	2.37E-03
45	GO:0006349: regulation of gene expression by genetic imprinting	2.65E-03
46	GO:0010582: floral meristem determinacy	3.57E-03
47	GO:0006446: regulation of translational initiation	4.22E-03
48	GO:0010030: positive regulation of seed germination	4.57E-03
49	GO:0000027: ribosomal large subunit assembly	5.28E-03
50	GO:0051302: regulation of cell division	5.65E-03
51	GO:0006334: nucleosome assembly	6.03E-03
52	GO:0009294: DNA mediated transformation	6.82E-03
53	GO:0010197: polar nucleus fusion	8.50E-03
54	GO:0006342: chromatin silencing	8.50E-03
55	GO:0009960: endosperm development	8.50E-03
56	GO:0010305: leaf vascular tissue pattern formation	8.50E-03
57	GO:0048825: cotyledon development	9.39E-03
58	GO:0080156: mitochondrial mRNA modification	9.85E-03
59	GO:0000724: double-strand break repair via homologous recombination	1.76E-02
60	GO:0032259: methylation	2.02E-02
61	GO:0009926: auxin polar transport	2.18E-02
62	GO:0006260: DNA replication	2.50E-02
63	GO:0009909: regulation of flower development	2.90E-02
64	GO:0006417: regulation of translation	2.90E-02
65	GO:0006396: RNA processing	3.54E-02
66	GO:0009555: pollen development	3.75E-02
67	GO:0006413: translational initiation	4.86E-02

Rank	GO Term	Adjusted P value
1	GO:0003963: RNA-3'-phosphate cyclase activity	0.00E+00
2	GO:0004164: diphthine synthase activity	0.00E+00
3	GO:0016435: rRNA (guanine) methyltransferase activity	0.00E+00
4	GO:0000166: nucleotide binding	4.29E-14
5	GO:0003723: RNA binding	1.18E-09
6	GO:0070181: small ribosomal subunit rRNA binding	1.95E-06
7	GO:0008026: ATP-dependent helicase activity	2.40E-06
8	GO:0004004: ATP-dependent RNA helicase activity	3.36E-06
9	GO:0030515: snoRNA binding	4.27E-05
10	GO:0001054: RNA polymerase I activity	1.48E-04
11	GO:0016891: endoribonuclease activity, producing 5'-phosphomonoesters	2.32E-04
12	GO:0043021: ribonucleoprotein complex binding	2.32E-04
13	GO:0003899: DNA-directed 5'-3' RNA polymerase activity	3.31E-04
14	GO:0004816: asparagine-tRNA ligase activity	3.86E-04
15	GO:0042781: 3'-tRNA processing endoribonuclease activity	3.86E-04
16	GO:0048027: mRNA 5'-UTR binding	5.54E-04
17	GO:0004519: endonuclease activity	7.50E-04
18	GO:0008168: methyltransferase activity	1.69E-03
19	GO:0042393: histone binding	2.01E-03
20	GO:0004521: endoribonuclease activity	3.57E-03
21	GO:0001056: RNA polymerase III activity	3.57E-03
22	GO:0003887: DNA-directed DNA polymerase activity	4.92E-03
23	GO:0043130: ubiquitin binding	5.28E-03
24	GO:0018024: histone-lysine N-methyltransferase activity	7.64E-03
25	GO:0003713: transcription coactivator activity	8.50E-03
26	GO:0000987: core promoter proximal region sequence-specific DNA binding	1.88E-02
27	GO:0004386: helicase activity	3.69E-02
28	GO:0003676: nucleic acid binding	3.78E-02
29	GO:0019843: rRNA binding	4.07E-02
30	GO:0003735: structural constituent of ribosome	4.52E-02

Rank	GO Term	Adjusted P value
1	GO:0034455: t-UTP complex	0.00E+00
2	GO:0034388: Pwp2p-containing subcomplex of 90S preribosome	0.00E+00
3	GO:0030688: preribosome, small subunit precursor	0.00E+00
4	GO:0019034: viral replication complex	0.00E+00
5	GO:0005730: nucleolus	2.05E-21
6	GO:0005634: nucleus	8.75E-13
7	GO:0080008: Cul4-RING E3 ubiquitin ligase complex	8.28E-08
8	GO:0030687: preribosome, large subunit precursor	3.27E-07
9	GO:0070545: PeBoW complex	5.13E-07
10	GO:0032040: small-subunit processome	3.33E-06
11	GO:0005736: DNA-directed RNA polymerase I complex	8.74E-05
12	GO:0016282: eukaryotic 43S preinitiation complex	1.14E-03
13	GO:0033290: eukaryotic 48S preinitiation complex	1.36E-03
14	GO:0034399: nuclear periphery	1.84E-03
15	GO:0005763: mitochondrial small ribosomal subunit	2.37E-03
16	GO:0005666: DNA-directed RNA polymerase III complex	2.65E-03
17	GO:0005852: eukaryotic translation initiation factor 3 complex	3.25E-03
18	GO:0005834: heterotrimeric G-protein complex	3.82E-03
19	GO:0043234: protein complex	4.92E-03
20	GO:0005654: nucleoplasm	5.24E-03
21	GO:0015935: small ribosomal subunit	6.03E-03
22	GO:0005694: chromosome	1.03E-02
23	GO:0030529: intracellular ribonucleoprotein complex	1.28E-02
24	GO:0005829: cytosol	1.64E-02
25	GO:0015934: large ribosomal subunit	1.71E-02