co-expression network

GO Enrichment Analysis of Co-expressed Genes with

AT5G60990

GO-BP

GO-MF

GO-CC

Rank	GO Term	Adjusted P value
1	GO:0080180: 2-methylguanosine metabolic process	0.00E+00
2	GO:0002188: translation reinitiation	0.00E+00
3	GO:0043137: DNA replication, removal of RNA primer	0.00E+00
4	GO:0090070: positive regulation of ribosome biogenesis	0.00E+00
5	GO:0031591: wybutosine biosynthetic process	0.00E+00
6	GO:0000495: box H/ACA snoRNA 3'-end processing	0.00E+00
7	GO:0071731: response to nitric oxide	0.00E+00
8	GO:0090069: regulation of ribosome biogenesis	0.00E+00
9	GO:0000463: maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	0.00E+00
10	GO:1990481: mRNA pseudouridine synthesis	0.00E+00
11	GO:0000466: maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	0.00E+00
12	GO:0051050: positive regulation of transport	0.00E+00
13	GO:0001732: formation of cytoplasmic translation initiation complex	0.00E+00
14	GO:0006364: rRNA processing	1.12E-17
15	GO:0000462: maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	2.76E-09
16	GO:0010162: seed dormancy process	5.88E-06
17	GO:0042254: ribosome biogenesis	9.42E-06
18	GO:0010501: RNA secondary structure unwinding	7.02E-05
19	GO:0000028: ribosomal small subunit assembly	1.13E-04
20	GO:0009553: embryo sac development	1.33E-04
21	GO:0006407: rRNA export from nucleus	1.56E-04
22	GO:0031120: snRNA pseudouridine synthesis	1.56E-04
23	GO:0000469: cleavage involved in rRNA processing	1.56E-04
24	GO:0031118: rRNA pseudouridine synthesis	1.56E-04
25	GO:0017183: peptidyl-diphthamide biosynthetic process from peptidyl-histidine	1.56E-04
26	GO:0030490: maturation of SSU-rRNA	1.56E-04
27	GO:0000461: endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	1.56E-04
28	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)	1.56E-04
29	GO:2000232: regulation of rRNA processing	1.56E-04
30	GO:0043985: histone H4-R3 methylation	1.56E-04
31	GO:0080009: mRNA methylation	3.55E-04
32	GO:0045041: protein import into mitochondrial intermembrane space	3.55E-04
33	GO:0034470: ncRNA processing	3.55E-04
34	GO:0045604: regulation of epidermal cell differentiation	5.82E-04
35	GO:0009944: polarity specification of adaxial/abaxial axis	5.84E-04
36	GO:0007005: mitochondrion organization	7.69E-04
37	GO:0007276: gamete generation	8.33E-04
38	GO:0051131: chaperone-mediated protein complex assembly	8.33E-04
39	GO:0009294: DNA mediated transformation	8.37E-04
40	GO:0009561: megagametogenesis	9.07E-04
41	GO:0016569: covalent chromatin modification	1.05E-03
42	GO:0006479: protein methylation	1.10E-03
43	GO:1900864: mitochondrial RNA modification	1.10E-03
44	GO:0046345: abscisic acid catabolic process	1.10E-03
45	GO:0042274: ribosomal small subunit biogenesis	1.10E-03
46	GO:0042273: ribosomal large subunit biogenesis	1.10E-03
47	GO:0000460: maturation of 5.8S rRNA	1.10E-03
48	GO:0048825: cotyledon development	1.30E-03
49	GO:0000380: alternative mRNA splicing, via spliceosome	1.40E-03
50	GO:0032259: methylation	1.60E-03
51	GO:0000470: maturation of LSU-rRNA	1.72E-03
52	GO:0009920: cell plate formation involved in plant-type cell wall biogenesis	1.72E-03
53	GO:0006458: 'de novo' protein folding	2.06E-03
54	GO:0030488: tRNA methylation	2.06E-03
55	GO:0048444: floral organ morphogenesis	2.06E-03
56	GO:0010077: maintenance of inflorescence meristem identity	2.06E-03
57	GO:0042026: protein refolding	2.06E-03
58	GO:0009451: RNA modification	2.32E-03
59	GO:0006400: tRNA modification	2.42E-03
60	GO:0045995: regulation of embryonic development	2.42E-03
61	GO:0006412: translation	2.56E-03
62	GO:0019827: stem cell population maintenance	2.80E-03
63	GO:0042255: ribosome assembly	2.80E-03
64	GO:0009880: embryonic pattern specification	3.21E-03
65	GO:0006261: DNA-dependent DNA replication	3.21E-03
66	GO:2000024: regulation of leaf development	3.63E-03
67	GO:0001708: cell fate specification	3.63E-03
68	GO:0000387: spliceosomal snRNP assembly	4.06E-03
69	GO:1900865: chloroplast RNA modification	4.06E-03
70	GO:0030422: production of siRNA involved in RNA interference	4.52E-03
71	GO:0010582: floral meristem determinacy	5.48E-03
72	GO:2000012: regulation of auxin polar transport	5.98E-03
73	GO:0045892: negative regulation of transcription, DNA-templated	6.61E-03
74	GO:0010030: positive regulation of seed germination	7.04E-03
75	GO:0006406: mRNA export from nucleus	8.16E-03
76	GO:0000027: ribosomal large subunit assembly	8.16E-03
77	GO:0006396: RNA processing	8.30E-03
78	GO:0051302: regulation of cell division	8.74E-03
79	GO:0000398: mRNA splicing, via spliceosome	9.31E-03
80	GO:0061077: chaperone-mediated protein folding	9.34E-03
81	GO:0009411: response to UV	1.06E-02
82	GO:0009693: ethylene biosynthetic process	1.06E-02
83	GO:0006284: base-excision repair	1.12E-02
84	GO:0009790: embryo development	1.18E-02
85	GO:0070417: cellular response to cold	1.19E-02
86	GO:0010305: leaf vascular tissue pattern formation	1.32E-02
87	GO:0006974: cellular response to DNA damage stimulus	2.16E-02
88	GO:0016049: cell growth	2.32E-02
89	GO:0008219: cell death	2.41E-02
90	GO:0048527: lateral root development	2.67E-02
91	GO:0009926: auxin polar transport	3.42E-02
92	GO:0000154: rRNA modification	3.71E-02
93	GO:0006260: DNA replication	3.91E-02
94	GO:0006417: regulation of translation	4.54E-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:0003963: RNA-3'-phosphate cyclase activity	0.00E+00
4	GO:0004164: diphthine synthase activity	0.00E+00
5	GO:0034062: 5'-3' RNA polymerase activity	0.00E+00
6	GO:0003723: RNA binding	2.11E-18
7	GO:0000166: nucleotide binding	2.07E-16
8	GO:0008026: ATP-dependent helicase activity	6.24E-10
9	GO:0030515: snoRNA binding	5.45E-09
10	GO:0004407: histone deacetylase activity	5.06E-07
11	GO:0043021: ribonucleoprotein complex binding	1.19E-06
12	GO:0003899: DNA-directed 5'-3' RNA polymerase activity	4.16E-06
13	GO:0001054: RNA polymerase I activity	7.66E-06
14	GO:0004004: ATP-dependent RNA helicase activity	1.27E-05
15	GO:0008168: methyltransferase activity	9.08E-05
16	GO:0042134: rRNA primary transcript binding	1.56E-04
17	GO:0016422: mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity	1.56E-04
18	GO:0044183: protein binding involved in protein folding	2.86E-04
19	GO:0004519: endonuclease activity	3.84E-04
20	GO:0017108: 5'-flap endonuclease activity	5.82E-04
21	GO:0070181: small ribosomal subunit rRNA binding	5.82E-04
22	GO:0003735: structural constituent of ribosome	9.08E-04
23	GO:0008409: 5'-3' exonuclease activity	1.10E-03
24	GO:0004527: exonuclease activity	1.13E-03
25	GO:0003689: DNA clamp loader activity	1.40E-03
26	GO:0019843: rRNA binding	1.50E-03
27	GO:0003729: mRNA binding	1.76E-03
28	GO:0043022: ribosome binding	2.80E-03
29	GO:0008173: RNA methyltransferase activity	3.21E-03
30	GO:0003676: nucleic acid binding	4.42E-03
31	GO:0004521: endoribonuclease activity	5.48E-03
32	GO:0001056: RNA polymerase III activity	5.48E-03
33	GO:0003725: double-stranded RNA binding	5.98E-03
34	GO:0009982: pseudouridine synthase activity	5.98E-03
35	GO:0051082: unfolded protein binding	8.06E-03
36	GO:0016787: hydrolase activity	1.19E-02
37	GO:0003713: transcription coactivator activity	1.32E-02
38	GO:0016887: ATPase activity	1.48E-02
39	GO:0004518: nuclease activity	1.61E-02
40	GO:0005524: ATP binding	2.13E-02
41	GO:0008757: S-adenosylmethionine-dependent methyltransferase activity	2.32E-02
42	GO:0003746: translation elongation factor activity	2.85E-02
43	GO:0003697: single-stranded DNA binding	2.85E-02
44	GO:0000987: core promoter proximal region sequence-specific DNA binding	2.94E-02
45	GO:0003690: double-stranded DNA binding	4.33E-02

Rank	GO Term	Adjusted P value
1	GO:0034457: Mpp10 complex	0.00E+00
2	GO:0071540: eukaryotic translation initiation factor 3 complex, eIF3e	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:0036396: MIS complex	0.00E+00
6	GO:0070545: PeBoW complex	0.00E+00
7	GO:0005730: nucleolus	5.06E-42
8	GO:0032040: small-subunit processome	1.40E-16
9	GO:0005634: nucleus	9.57E-14
10	GO:0080008: Cul4-RING E3 ubiquitin ligase complex	1.82E-09
11	GO:0030687: preribosome, large subunit precursor	5.45E-09
12	GO:0005736: DNA-directed RNA polymerase I complex	3.23E-06
13	GO:0005834: heterotrimeric G-protein complex	1.13E-04
14	GO:0030688: preribosome, small subunit precursor	1.56E-04
15	GO:0030686: 90S preribosome	1.56E-04
16	GO:0043614: multi-eIF complex	1.56E-04
17	GO:0071541: eukaryotic translation initiation factor 3 complex, eIF3m	1.56E-04
18	GO:0005654: nucleoplasm	1.98E-04
19	GO:0015935: small ribosomal subunit	7.05E-04
20	GO:0031429: box H/ACA snoRNP complex	8.33E-04
21	GO:0005663: DNA replication factor C complex	1.10E-03
22	GO:0031428: box C/D snoRNP complex	1.72E-03
23	GO:0005759: mitochondrial matrix	2.00E-03
24	GO:0016363: nuclear matrix	2.06E-03
25	GO:0034399: nuclear periphery	2.80E-03
26	GO:0022627: cytosolic small ribosomal subunit	3.22E-03
27	GO:0005763: mitochondrial small ribosomal subunit	3.63E-03
28	GO:0005666: DNA-directed RNA polymerase III complex	4.06E-03
29	GO:0015030: Cajal body	4.06E-03
30	GO:0005852: eukaryotic translation initiation factor 3 complex	4.99E-03
31	GO:0019013: viral nucleocapsid	5.98E-03
32	GO:0005829: cytosol	6.58E-03
33	GO:0005681: spliceosomal complex	6.69E-03
34	GO:0042651: thylakoid membrane	8.74E-03
35	GO:0005618: cell wall	1.20E-02
36	GO:0005840: ribosome	1.28E-02
37	GO:0019898: extrinsic component of membrane	1.46E-02
38	GO:0022626: cytosolic ribosome	1.66E-02
39	GO:0030529: intracellular ribonucleoprotein complex	1.99E-02
40	GO:0015934: large ribosomal subunit	2.67E-02
41	GO:0016607: nuclear speck	4.86E-02
42	GO:0005747: mitochondrial respiratory chain complex I	4.86E-02