co-expression network

GO Enrichment Analysis of Co-expressed Genes with

AT3G04550

GO-BP

GO-MF

GO-CC

Rank	GO Term	Adjusted P value
1	GO:0090071: negative regulation of ribosome biogenesis	0.00E+00
2	GO:0046838: phosphorylated carbohydrate dephosphorylation	0.00E+00
3	GO:2000042: negative regulation of double-strand break repair via homologous recombination	0.00E+00
4	GO:0042407: cristae formation	0.00E+00
5	GO:0018023: peptidyl-lysine trimethylation	0.00E+00
6	GO:0010059: positive regulation of atrichoblast fate specification	0.00E+00
7	GO:0006429: leucyl-tRNA aminoacylation	0.00E+00
8	GO:0061157: mRNA destabilization	0.00E+00
9	GO:0032194: ubiquinone biosynthetic process via 3,4-dihydroxy-5-polyprenylbenzoate	0.00E+00
10	GO:0018026: peptidyl-lysine monomethylation	2.23E-06
11	GO:0046739: transport of virus in multicellular host	1.87E-05
12	GO:0010020: chloroplast fission	3.23E-05
13	GO:0042793: transcription from plastid promoter	8.04E-05
14	GO:1901259: chloroplast rRNA processing	1.11E-04
15	GO:0042372: phylloquinone biosynthetic process	1.11E-04
16	GO:0048437: floral organ development	1.47E-04
17	GO:0010305: leaf vascular tissue pattern formation	1.56E-04
18	GO:0005980: glycogen catabolic process	2.18E-04
19	GO:0030198: extracellular matrix organization	2.18E-04
20	GO:0010063: positive regulation of trichoblast fate specification	2.18E-04
21	GO:0010480: microsporocyte differentiation	2.18E-04
22	GO:0042759: long-chain fatty acid biosynthetic process	2.18E-04
23	GO:0042371: vitamin K biosynthetic process	2.18E-04
24	GO:0043007: maintenance of rDNA	2.18E-04
25	GO:0015904: tetracycline transport	2.18E-04
26	GO:0005991: trehalose metabolic process	2.18E-04
27	GO:0048363: mucilage pectin metabolic process	2.18E-04
28	GO:0000025: maltose catabolic process	2.18E-04
29	GO:0010497: plasmodesmata-mediated intercellular transport	2.33E-04
30	GO:0009658: chloroplast organization	2.55E-04
31	GO:0031425: chloroplast RNA processing	3.36E-04
32	GO:0009793: embryo development ending in seed dormancy	3.63E-04
33	GO:0015995: chlorophyll biosynthetic process	4.29E-04
34	GO:0006423: cysteinyl-tRNA aminoacylation	4.86E-04
35	GO:0019388: galactose catabolic process	4.86E-04
36	GO:0071668: plant-type cell wall assembly	4.86E-04
37	GO:0001682: tRNA 5'-leader removal	4.86E-04
38	GO:2000123: positive regulation of stomatal complex development	4.86E-04
39	GO:0005983: starch catabolic process	5.22E-04
40	GO:0006006: glucose metabolic process	5.92E-04
41	GO:0009451: RNA modification	7.51E-04
42	GO:0006508: proteolysis	7.72E-04
43	GO:0043433: negative regulation of sequence-specific DNA binding transcription factor activity	1.13E-03
44	GO:0016556: mRNA modification	1.13E-03
45	GO:0009590: detection of gravity	1.13E-03
46	GO:0043572: plastid fission	1.13E-03
47	GO:0010071: root meristem specification	1.13E-03
48	GO:0009102: biotin biosynthetic process	1.13E-03
49	GO:0006221: pyrimidine nucleotide biosynthetic process	1.50E-03
50	GO:2000038: regulation of stomatal complex development	1.50E-03
51	GO:0042274: ribosomal small subunit biogenesis	1.50E-03
52	GO:0009765: photosynthesis, light harvesting	1.50E-03
53	GO:0006662: glycerol ether metabolic process	1.78E-03
54	GO:0016120: carotene biosynthetic process	1.91E-03
55	GO:0032543: mitochondrial translation	1.91E-03
56	GO:0010236: plastoquinone biosynthetic process	1.91E-03
57	GO:0016123: xanthophyll biosynthetic process	1.91E-03
58	GO:0010375: stomatal complex patterning	1.91E-03
59	GO:0016554: cytidine to uridine editing	2.35E-03
60	GO:0032973: amino acid export	2.35E-03
61	GO:0018258: protein O-linked glycosylation via hydroxyproline	2.35E-03
62	GO:0006086: acetyl-CoA biosynthetic process from pyruvate	2.35E-03
63	GO:0033365: protein localization to organelle	2.35E-03
64	GO:0010405: arabinogalactan protein metabolic process	2.35E-03
65	GO:0009959: negative gravitropism	2.35E-03
66	GO:0042026: protein refolding	2.83E-03
67	GO:0009082: branched-chain amino acid biosynthetic process	2.83E-03
68	GO:0006458: 'de novo' protein folding	2.83E-03
69	GO:0017148: negative regulation of translation	2.83E-03
70	GO:0009099: valine biosynthetic process	2.83E-03
71	GO:0080086: stamen filament development	2.83E-03
72	GO:0010027: thylakoid membrane organization	3.17E-03
73	GO:0009790: embryo development	3.32E-03
74	GO:0010098: suspensor development	3.33E-03
75	GO:0010161: red light signaling pathway	3.33E-03
76	GO:0009772: photosynthetic electron transport in photosystem II	3.33E-03
77	GO:0043090: amino acid import	3.33E-03
78	GO:0005978: glycogen biosynthetic process	3.86E-03
79	GO:0046620: regulation of organ growth	3.86E-03
80	GO:0070413: trehalose metabolism in response to stress	3.86E-03
81	GO:0001522: pseudouridine synthesis	3.86E-03
82	GO:0000105: histidine biosynthetic process	3.86E-03
83	GO:0009657: plastid organization	4.42E-03
84	GO:0009097: isoleucine biosynthetic process	4.42E-03
85	GO:0010100: negative regulation of photomorphogenesis	4.42E-03
86	GO:0010099: regulation of photomorphogenesis	4.42E-03
87	GO:0048507: meristem development	5.00E-03
88	GO:0080144: amino acid homeostasis	5.00E-03
89	GO:0046916: cellular transition metal ion homeostasis	5.00E-03
90	GO:0006783: heme biosynthetic process	5.00E-03
91	GO:0000902: cell morphogenesis	5.00E-03
92	GO:0046685: response to arsenic-containing substance	5.00E-03
93	GO:0034599: cellular response to oxidative stress	5.46E-03
94	GO:0009098: leucine biosynthetic process	5.62E-03
95	GO:1900865: chloroplast RNA modification	5.62E-03
96	GO:0048354: mucilage biosynthetic process involved in seed coat development	5.62E-03
97	GO:0043067: regulation of programmed cell death	5.62E-03
98	GO:0006779: porphyrin-containing compound biosynthetic process	5.62E-03
99	GO:0030001: metal ion transport	5.95E-03
100	GO:0006782: protoporphyrinogen IX biosynthetic process	6.25E-03
101	GO:0009773: photosynthetic electron transport in photosystem I	6.91E-03
102	GO:0009073: aromatic amino acid family biosynthetic process	6.91E-03
103	GO:0043085: positive regulation of catalytic activity	6.91E-03
104	GO:0048229: gametophyte development	6.91E-03
105	GO:0006820: anion transport	7.60E-03
106	GO:0010588: cotyledon vascular tissue pattern formation	8.30E-03
107	GO:0010102: lateral root morphogenesis	8.30E-03
108	GO:0010628: positive regulation of gene expression	8.30E-03
109	GO:0010075: regulation of meristem growth	8.30E-03
110	GO:0009416: response to light stimulus	8.37E-03
111	GO:0009266: response to temperature stimulus	9.03E-03
112	GO:0009934: regulation of meristem structural organization	9.03E-03
113	GO:0080188: RNA-directed DNA methylation	9.79E-03
114	GO:0010030: positive regulation of seed germination	9.79E-03
115	GO:0010025: wax biosynthetic process	1.06E-02
116	GO:0000162: tryptophan biosynthetic process	1.06E-02
117	GO:0048367: shoot system development	1.11E-02
118	GO:0010187: negative regulation of seed germination	1.14E-02
119	GO:0005992: trehalose biosynthetic process	1.14E-02
120	GO:0045454: cell redox homeostasis	1.18E-02
121	GO:0006418: tRNA aminoacylation for protein translation	1.22E-02
122	GO:0048511: rhythmic process	1.30E-02
123	GO:0061077: chaperone-mediated protein folding	1.30E-02
124	GO:0009742: brassinosteroid mediated signaling pathway	1.37E-02
125	GO:0006730: one-carbon metabolic process	1.39E-02
126	GO:0009686: gibberellin biosynthetic process	1.48E-02
127	GO:0042127: regulation of cell proliferation	1.57E-02
128	GO:0006397: mRNA processing	1.63E-02
129	GO:0016117: carotenoid biosynthetic process	1.66E-02
130	GO:0009789: positive regulation of abscisic acid-activated signaling pathway	1.66E-02
131	GO:0000271: polysaccharide biosynthetic process	1.75E-02
132	GO:0080022: primary root development	1.75E-02
133	GO:0008033: tRNA processing	1.75E-02
134	GO:0010087: phloem or xylem histogenesis	1.75E-02
135	GO:0048653: anther development	1.75E-02
136	GO:0042631: cellular response to water deprivation	1.75E-02
137	GO:0045489: pectin biosynthetic process	1.85E-02
138	GO:0010197: polar nucleus fusion	1.85E-02
139	GO:0010182: sugar mediated signaling pathway	1.85E-02
140	GO:0042752: regulation of circadian rhythm	1.95E-02
141	GO:0019252: starch biosynthetic process	2.05E-02
142	GO:0007267: cell-cell signaling	2.57E-02
143	GO:0007166: cell surface receptor signaling pathway	2.57E-02
144	GO:0010029: regulation of seed germination	2.91E-02
145	GO:0048481: plant ovule development	3.37E-02
146	GO:0009832: plant-type cell wall biogenesis	3.49E-02
147	GO:0009910: negative regulation of flower development	3.74E-02
148	GO:0045087: innate immune response	3.99E-02
149	GO:0016051: carbohydrate biosynthetic process	3.99E-02
150	GO:0007169: transmembrane receptor protein tyrosine kinase signaling pathway	4.44E-02
151	GO:0009640: photomorphogenesis	4.78E-02
152	GO:0009926: auxin polar transport	4.78E-02

Rank	GO Term	Adjusted P value
1	GO:0046428: 1,4-dihydroxy-2-naphthoate octaprenyltransferase activity	0.00E+00
2	GO:0045435: lycopene epsilon cyclase activity	0.00E+00
3	GO:0004823: leucine-tRNA ligase activity	0.00E+00
4	GO:0008756: o-succinylbenzoate-CoA ligase activity	0.00E+00
5	GO:0004314: [acyl-carrier-protein] S-malonyltransferase activity	0.00E+00
6	GO:0015267: channel activity	0.00E+00
7	GO:0003949: 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino]imidazole-4-carboxamide isomerase activity	0.00E+00
8	GO:0005201: extracellular matrix structural constituent	0.00E+00
9	GO:0004076: biotin synthase activity	0.00E+00
10	GO:0016279: protein-lysine N-methyltransferase activity	3.41E-05
11	GO:0004176: ATP-dependent peptidase activity	7.43E-05
12	GO:0004519: endonuclease activity	1.78E-04
13	GO:0050308: sugar-phosphatase activity	2.18E-04
14	GO:0010313: phytochrome binding	2.18E-04
15	GO:0004134: 4-alpha-glucanotransferase activity	2.18E-04
16	GO:0004645: phosphorylase activity	2.18E-04
17	GO:0019203: carbohydrate phosphatase activity	2.18E-04
18	GO:0030785: [ribulose-bisphosphate carboxylase]-lysine N-methyltransferase activity	2.18E-04
19	GO:0042286: glutamate-1-semialdehyde 2,1-aminomutase activity	2.18E-04
20	GO:0050139: nicotinate-N-glucosyltransferase activity	2.18E-04
21	GO:0008184: glycogen phosphorylase activity	2.18E-04
22	GO:0008237: metallopeptidase activity	2.97E-04
23	GO:0008493: tetracycline transporter activity	4.86E-04
24	GO:0004614: phosphoglucomutase activity	4.86E-04
25	GO:0004817: cysteine-tRNA ligase activity	4.86E-04
26	GO:0003723: RNA binding	5.05E-04
27	GO:0002161: aminoacyl-tRNA editing activity	7.90E-04
28	GO:0004148: dihydrolipoyl dehydrogenase activity	7.90E-04
29	GO:0016805: dipeptidase activity	7.90E-04
30	GO:0004180: carboxypeptidase activity	7.90E-04
31	GO:0009041: uridylate kinase activity	1.13E-03
32	GO:0016851: magnesium chelatase activity	1.13E-03
33	GO:0052656: L-isoleucine transaminase activity	1.13E-03
34	GO:0043023: ribosomal large subunit binding	1.13E-03
35	GO:0052654: L-leucine transaminase activity	1.13E-03
36	GO:0052655: L-valine transaminase activity	1.13E-03
37	GO:0003825: alpha,alpha-trehalose-phosphate synthase (UDP-forming) activity	1.13E-03
38	GO:0004084: branched-chain-amino-acid transaminase activity	1.50E-03
39	GO:0004659: prenyltransferase activity	1.50E-03
40	GO:0047134: protein-disulfide reductase activity	1.54E-03
41	GO:0004791: thioredoxin-disulfide reductase activity	1.92E-03
42	GO:0016208: AMP binding	2.35E-03
43	GO:2001070: starch binding	2.35E-03
44	GO:1990714: hydroxyproline O-galactosyltransferase activity	2.35E-03
45	GO:0004526: ribonuclease P activity	2.35E-03
46	GO:0016671: oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor	2.50E-03
47	GO:0004723: calcium-dependent protein serine/threonine phosphatase activity	2.83E-03
48	GO:0046914: transition metal ion binding	4.42E-03
49	GO:0008173: RNA methyltransferase activity	4.42E-03
50	GO:0004222: metalloendopeptidase activity	4.55E-03
51	GO:0008138: protein tyrosine/serine/threonine phosphatase activity	5.00E-03
52	GO:0008047: enzyme activator activity	6.25E-03
53	GO:0016887: ATPase activity	6.81E-03
54	GO:0044183: protein binding involved in protein folding	6.91E-03
55	GO:0000287: magnesium ion binding	6.98E-03
56	GO:0043621: protein self-association	7.28E-03
57	GO:0015266: protein channel activity	8.30E-03
58	GO:0004089: carbonate dehydratase activity	8.30E-03
59	GO:0009982: pseudouridine synthase activity	8.30E-03
60	GO:0008266: poly(U) RNA binding	9.03E-03
61	GO:0008146: sulfotransferase activity	9.79E-03
62	GO:0033612: receptor serine/threonine kinase binding	1.30E-02
63	GO:0015035: protein disulfide oxidoreductase activity	1.33E-02
64	GO:0047262: polygalacturonate 4-alpha-galacturonosyltransferase activity	1.39E-02
65	GO:0003727: single-stranded RNA binding	1.57E-02
66	GO:0016758: transferase activity, transferring hexosyl groups	1.58E-02
67	GO:0004812: aminoacyl-tRNA ligase activity	1.66E-02
68	GO:0016705: oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen	1.67E-02
69	GO:0030170: pyridoxal phosphate binding	1.80E-02
70	GO:0001085: RNA polymerase II transcription factor binding	1.85E-02
71	GO:0019901: protein kinase binding	2.05E-02
72	GO:0004675: transmembrane receptor protein serine/threonine kinase activity	2.09E-02
73	GO:0016757: transferase activity, transferring glycosyl groups	2.23E-02
74	GO:0016791: phosphatase activity	2.46E-02
75	GO:0008483: transaminase activity	2.57E-02
76	GO:0004702: signal transducer, downstream of receptor, with serine/threonine kinase activity	2.57E-02
77	GO:0005200: structural constituent of cytoskeleton	2.57E-02
78	GO:0008168: methyltransferase activity	3.34E-02
79	GO:0015450: P-P-bond-hydrolysis-driven protein transmembrane transporter activity	3.37E-02
80	GO:0015238: drug transmembrane transporter activity	3.49E-02
81	GO:0016788: hydrolase activity, acting on ester bonds	3.54E-02
82	GO:0001228: transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding	3.74E-02
83	GO:0016706: oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors	3.99E-02
84	GO:0051539: 4 iron, 4 sulfur cluster binding	4.38E-02
85	GO:0052689: carboxylic ester hydrolase activity	4.74E-02
86	GO:0004185: serine-type carboxypeptidase activity	4.78E-02

Rank	GO Term	Adjusted P value
1	GO:0009507: chloroplast	3.89E-16
2	GO:0009570: chloroplast stroma	1.16E-13
3	GO:0009295: nucleoid	1.85E-05
4	GO:0009941: chloroplast envelope	1.94E-05
5	GO:0009508: plastid chromosome	2.64E-05
6	GO:0031357: integral component of chloroplast inner membrane	4.86E-04
7	GO:0000427: plastid-encoded plastid RNA polymerase complex	4.86E-04
8	GO:0010007: magnesium chelatase complex	7.90E-04
9	GO:0043231: intracellular membrane-bounded organelle	9.12E-04
10	GO:0042646: plastid nucleoid	1.13E-03
11	GO:0031969: chloroplast membrane	1.93E-03
12	GO:0009706: chloroplast inner membrane	2.05E-03
13	GO:0010319: stromule	2.82E-03
14	GO:0005655: nucleolar ribonuclease P complex	2.83E-03
15	GO:0030529: intracellular ribonucleoprotein complex	3.17E-03
16	GO:0009501: amyloplast	3.86E-03
17	GO:0042644: chloroplast nucleoid	5.00E-03
18	GO:0009536: plastid	1.03E-02
19	GO:0009579: thylakoid	1.10E-02
20	GO:0009534: chloroplast thylakoid	1.11E-02
21	GO:0015629: actin cytoskeleton	1.48E-02
22	GO:0005744: mitochondrial inner membrane presequence translocase complex	1.57E-02
23	GO:0005778: peroxisomal membrane	2.57E-02
24	GO:0005667: transcription factor complex	3.02E-02
25	GO:0009707: chloroplast outer membrane	3.37E-02