co-expression network

GO Enrichment Analysis of Co-expressed Genes with

AT3G54890

GO-BP

GO-MF

GO-CC

Rank	GO Term	Adjusted P value
1	GO:0012502: induction of programmed cell death	0.00E+00
2	GO:0010378: temperature compensation of the circadian clock	0.00E+00
3	GO:0030644: cellular chloride ion homeostasis	0.00E+00
4	GO:1903508: positive regulation of nucleic acid-templated transcription	0.00E+00
5	GO:1903428: positive regulation of reactive oxygen species biosynthetic process	0.00E+00
6	GO:0070584: mitochondrion morphogenesis	0.00E+00
7	GO:0071311: cellular response to acetate	0.00E+00
8	GO:1901401: regulation of tetrapyrrole metabolic process	0.00E+00
9	GO:0071260: cellular response to mechanical stimulus	0.00E+00
10	GO:0009877: nodulation	0.00E+00
11	GO:0009768: photosynthesis, light harvesting in photosystem I	1.08E-17
12	GO:0015979: photosynthesis	3.54E-12
13	GO:0018298: protein-chromophore linkage	1.34E-10
14	GO:0010114: response to red light	8.78E-07
15	GO:0009416: response to light stimulus	9.28E-07
16	GO:0009644: response to high light intensity	1.12E-06
17	GO:0007623: circadian rhythm	2.45E-06
18	GO:0009769: photosynthesis, light harvesting in photosystem II	4.66E-06
19	GO:0009645: response to low light intensity stimulus	4.66E-06
20	GO:0010218: response to far red light	6.32E-06
21	GO:0042542: response to hydrogen peroxide	1.54E-05
22	GO:0009409: response to cold	5.98E-05
23	GO:0009637: response to blue light	1.30E-04
24	GO:0080167: response to karrikin	1.50E-04
25	GO:0010196: nonphotochemical quenching	2.24E-04
26	GO:0015812: gamma-aminobutyric acid transport	2.87E-04
27	GO:0032958: inositol phosphate biosynthetic process	2.87E-04
28	GO:0006355: regulation of transcription, DNA-templated	5.46E-04
29	GO:1902884: positive regulation of response to oxidative stress	6.30E-04
30	GO:0051170: nuclear import	6.30E-04
31	GO:0006883: cellular sodium ion homeostasis	6.30E-04
32	GO:0015995: chlorophyll biosynthetic process	7.09E-04
33	GO:0006598: polyamine catabolic process	1.02E-03
34	GO:0071230: cellular response to amino acid stimulus	1.02E-03
35	GO:1901562: response to paraquat	1.02E-03
36	GO:0042256: mature ribosome assembly	1.02E-03
37	GO:1902448: positive regulation of shade avoidance	1.02E-03
38	GO:0030100: regulation of endocytosis	1.46E-03
39	GO:0031936: negative regulation of chromatin silencing	1.46E-03
40	GO:1901332: negative regulation of lateral root development	1.46E-03
41	GO:0006020: inositol metabolic process	1.46E-03
42	GO:1901000: regulation of response to salt stress	1.46E-03
43	GO:0010601: positive regulation of auxin biosynthetic process	1.46E-03
44	GO:0044211: CTP salvage	1.46E-03
45	GO:0006874: cellular calcium ion homeostasis	1.47E-03
46	GO:0009408: response to heat	1.54E-03
47	GO:0048511: rhythmic process	1.62E-03
48	GO:0008643: carbohydrate transport	1.64E-03
49	GO:0010017: red or far-red light signaling pathway	1.77E-03
50	GO:0010600: regulation of auxin biosynthetic process	1.96E-03
51	GO:1901002: positive regulation of response to salt stress	1.96E-03
52	GO:0030104: water homeostasis	1.96E-03
53	GO:0010508: positive regulation of autophagy	1.96E-03
54	GO:0044206: UMP salvage	1.96E-03
55	GO:0015743: malate transport	1.96E-03
56	GO:2000306: positive regulation of photomorphogenesis	1.96E-03
57	GO:0009585: red, far-red light phototransduction	2.17E-03
58	GO:0007165: signal transduction	2.38E-03
59	GO:0043097: pyrimidine nucleoside salvage	2.50E-03
60	GO:0006461: protein complex assembly	2.50E-03
61	GO:0016123: xanthophyll biosynthetic process	2.50E-03
62	GO:0048578: positive regulation of long-day photoperiodism, flowering	2.50E-03
63	GO:0009658: chloroplast organization	2.56E-03
64	GO:0006206: pyrimidine nucleobase metabolic process	3.08E-03
65	GO:0009635: response to herbicide	3.08E-03
66	GO:0045962: positive regulation of development, heterochronic	3.08E-03
67	GO:0006351: transcription, DNA-templated	3.36E-03
68	GO:0010244: response to low fluence blue light stimulus by blue low-fluence system	3.71E-03
69	GO:0009861: jasmonic acid and ethylene-dependent systemic resistance	3.71E-03
70	GO:1901657: glycosyl compound metabolic process	3.71E-03
71	GO:0000079: regulation of cyclin-dependent protein serine/threonine kinase activity	3.71E-03
72	GO:0071470: cellular response to osmotic stress	3.71E-03
73	GO:0010286: heat acclimation	4.19E-03
74	GO:0048437: floral organ development	4.38E-03
75	GO:0080111: DNA demethylation	4.38E-03
76	GO:0010038: response to metal ion	4.38E-03
77	GO:0010161: red light signaling pathway	4.38E-03
78	GO:1900056: negative regulation of leaf senescence	4.38E-03
79	GO:0035556: intracellular signal transduction	4.66E-03
80	GO:0010029: regulation of seed germination	4.97E-03
81	GO:0009788: negative regulation of abscisic acid-activated signaling pathway	4.97E-03
82	GO:0042255: ribosome assembly	5.08E-03
83	GO:0010078: maintenance of root meristem identity	5.08E-03
84	GO:0009704: de-etiolation	5.08E-03
85	GO:0010928: regulation of auxin mediated signaling pathway	5.08E-03
86	GO:0007186: G-protein coupled receptor signaling pathway	5.82E-03
87	GO:0001510: RNA methylation	5.82E-03
88	GO:0010099: regulation of photomorphogenesis	5.82E-03
89	GO:0009827: plant-type cell wall modification	5.82E-03
90	GO:0009817: defense response to fungus, incompatible interaction	6.14E-03
91	GO:0000160: phosphorelay signal transduction system	6.45E-03
92	GO:0090333: regulation of stomatal closure	6.60E-03
93	GO:0010119: regulation of stomatal movement	7.10E-03
94	GO:0009737: response to abscisic acid	7.17E-03
95	GO:0010018: far-red light signaling pathway	7.41E-03
96	GO:0048354: mucilage biosynthetic process involved in seed coat development	7.41E-03
97	GO:0010380: regulation of chlorophyll biosynthetic process	7.41E-03
98	GO:0030042: actin filament depolymerization	7.41E-03
99	GO:0016051: carbohydrate biosynthetic process	7.78E-03
100	GO:0055114: oxidation-reduction process	8.02E-03
101	GO:0055062: phosphate ion homeostasis	8.26E-03
102	GO:0006995: cellular response to nitrogen starvation	8.26E-03
103	GO:0009688: abscisic acid biosynthetic process	8.26E-03
104	GO:0009641: shade avoidance	8.26E-03
105	GO:0006949: syncytium formation	8.26E-03
106	GO:0010162: seed dormancy process	8.26E-03
107	GO:0009970: cellular response to sulfate starvation	8.26E-03
108	GO:0018119: peptidyl-cysteine S-nitrosylation	9.14E-03
109	GO:0046856: phosphatidylinositol dephosphorylation	9.14E-03
110	GO:0006816: calcium ion transport	9.14E-03
111	GO:0009640: photomorphogenesis	1.01E-02
112	GO:0016925: protein sumoylation	1.01E-02
113	GO:0050826: response to freezing	1.10E-02
114	GO:0018107: peptidyl-threonine phosphorylation	1.10E-02
115	GO:0009718: anthocyanin-containing compound biosynthetic process	1.10E-02
116	GO:0009767: photosynthetic electron transport chain	1.10E-02
117	GO:0010207: photosystem II assembly	1.20E-02
118	GO:0007015: actin filament organization	1.20E-02
119	GO:0009266: response to temperature stimulus	1.20E-02
120	GO:0006812: cation transport	1.26E-02
121	GO:0042538: hyperosmotic salinity response	1.26E-02
122	GO:0019853: L-ascorbic acid biosynthetic process	1.30E-02
123	GO:0090351: seedling development	1.30E-02
124	GO:0006970: response to osmotic stress	1.31E-02
125	GO:0009735: response to cytokinin	1.34E-02
126	GO:0009414: response to water deprivation	1.39E-02
127	GO:0042753: positive regulation of circadian rhythm	1.40E-02
128	GO:0016575: histone deacetylation	1.62E-02
129	GO:0003333: amino acid transmembrane transport	1.73E-02
130	GO:0010431: seed maturation	1.73E-02
131	GO:0009269: response to desiccation	1.73E-02
132	GO:0044550: secondary metabolite biosynthetic process	1.74E-02
133	GO:0019748: secondary metabolic process	1.85E-02
134	GO:0045893: positive regulation of transcription, DNA-templated	1.89E-02
135	GO:0071215: cellular response to abscisic acid stimulus	1.96E-02
136	GO:0006012: galactose metabolic process	1.96E-02
137	GO:0045892: negative regulation of transcription, DNA-templated	2.00E-02
138	GO:0019722: calcium-mediated signaling	2.08E-02
139	GO:0045492: xylan biosynthetic process	2.08E-02
140	GO:0055085: transmembrane transport	2.19E-02
141	GO:0070417: cellular response to cold	2.21E-02
142	GO:0008284: positive regulation of cell proliferation	2.21E-02
143	GO:0009789: positive regulation of abscisic acid-activated signaling pathway	2.21E-02
144	GO:0034220: ion transmembrane transport	2.33E-02
145	GO:0010182: sugar mediated signaling pathway	2.46E-02
146	GO:0006814: sodium ion transport	2.59E-02
147	GO:0042752: regulation of circadian rhythm	2.59E-02
148	GO:0009556: microsporogenesis	2.72E-02
149	GO:0048510: regulation of timing of transition from vegetative to reproductive phase	2.86E-02
150	GO:0000302: response to reactive oxygen species	2.86E-02
151	GO:0032502: developmental process	3.00E-02
152	GO:0009639: response to red or far red light	3.28E-02
153	GO:0006914: autophagy	3.28E-02
154	GO:0009828: plant-type cell wall loosening	3.28E-02
155	GO:0019760: glucosinolate metabolic process	3.28E-02
156	GO:0010228: vegetative to reproductive phase transition of meristem	3.51E-02
157	GO:0016126: sterol biosynthetic process	3.72E-02
158	GO:0043161: proteasome-mediated ubiquitin-dependent protein catabolic process	3.74E-02
159	GO:0009739: response to gibberellin	3.74E-02
160	GO:0016567: protein ubiquitination	3.82E-02
161	GO:0010468: regulation of gene expression	3.99E-02
162	GO:0006888: ER to Golgi vesicle-mediated transport	4.17E-02
163	GO:0048573: photoperiodism, flowering	4.17E-02
164	GO:0006950: response to stress	4.17E-02
165	GO:0048481: plant ovule development	4.49E-02
166	GO:0009651: response to salt stress	4.56E-02
167	GO:0006811: ion transport	4.81E-02
168	GO:0009826: unidimensional cell growth	4.96E-02
169	GO:0009738: abscisic acid-activated signaling pathway	4.97E-02
170	GO:0009631: cold acclimation	4.97E-02
171	GO:0007568: aging	4.97E-02
172	GO:0009910: negative regulation of flower development	4.97E-02

Rank	GO Term	Adjusted P value
1	GO:0004567: beta-mannosidase activity	0.00E+00
2	GO:0080082: esculin beta-glucosidase activity	0.00E+00
3	GO:0015276: ligand-gated ion channel activity	0.00E+00
4	GO:0015038: glutathione disulfide oxidoreductase activity	0.00E+00
5	GO:0080081: 4-methylumbelliferyl-beta-D-glucopyranoside beta-glucosidase activity	0.00E+00
6	GO:0048529: magnesium-protoporphyrin IX monomethyl ester (oxidative) cyclase activity	0.00E+00
7	GO:0016428: tRNA (cytosine-5-)-methyltransferase activity	0.00E+00
8	GO:0047668: amygdalin beta-glucosidase activity	0.00E+00
9	GO:0019912: cyclin-dependent protein kinase activating kinase activity	0.00E+00
10	GO:0080083: beta-gentiobiose beta-glucosidase activity	0.00E+00
11	GO:0009540: zeaxanthin epoxidase [overall] activity	0.00E+00
12	GO:0030504: inorganic diphosphate transmembrane transporter activity	0.00E+00
13	GO:0010349: L-galactose dehydrogenase activity	0.00E+00
14	GO:0031409: pigment binding	4.74E-16
15	GO:0016168: chlorophyll binding	1.00E-12
16	GO:0005253: anion channel activity	5.45E-05
17	GO:0005515: protein binding	1.96E-04
18	GO:0008066: glutamate receptor activity	2.87E-04
19	GO:0000828: inositol hexakisphosphate kinase activity	2.87E-04
20	GO:0047066: phospholipid-hydroperoxide glutathione peroxidase activity	2.87E-04
21	GO:0015185: gamma-aminobutyric acid transmembrane transporter activity	2.87E-04
22	GO:0033857: diphosphoinositol-pentakisphosphate kinase activity	2.87E-04
23	GO:0000829: inositol heptakisphosphate kinase activity	2.87E-04
24	GO:0080079: cellobiose glucosidase activity	2.87E-04
25	GO:0047158: sinapoylglucose-sinapoylglucose O-sinapoyltransferase activity	6.30E-04
26	GO:0016630: protochlorophyllide reductase activity	6.30E-04
27	GO:0015180: L-alanine transmembrane transporter activity	6.30E-04
28	GO:0047216: inositol 3-alpha-galactosyltransferase activity	6.30E-04
29	GO:0004096: catalase activity	1.02E-03
30	GO:0046592: polyamine oxidase activity	1.02E-03
31	GO:0019948: SUMO activating enzyme activity	1.02E-03
32	GO:0017150: tRNA dihydrouridine synthase activity	1.02E-03
33	GO:0046872: metal ion binding	1.03E-03
34	GO:0005217: intracellular ligand-gated ion channel activity	1.09E-03
35	GO:0004970: ionotropic glutamate receptor activity	1.09E-03
36	GO:0015181: arginine transmembrane transporter activity	1.46E-03
37	GO:0015189: L-lysine transmembrane transporter activity	1.46E-03
38	GO:0003700: transcription factor activity, sequence-specific DNA binding	1.57E-03
39	GO:0004707: MAP kinase activity	1.62E-03
40	GO:0005313: L-glutamate transmembrane transporter activity	1.96E-03
41	GO:0004506: squalene monooxygenase activity	1.96E-03
42	GO:0004930: G-protein coupled receptor activity	1.96E-03
43	GO:0004845: uracil phosphoribosyltransferase activity	1.96E-03
44	GO:0045300: acyl-[acyl-carrier-protein] desaturase activity	2.50E-03
45	GO:0016702: oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen	2.50E-03
46	GO:0015562: efflux transmembrane transporter activity	3.08E-03
47	GO:0005247: voltage-gated chloride channel activity	3.08E-03
48	GO:0004629: phospholipase C activity	3.08E-03
49	GO:0004849: uridine kinase activity	3.71E-03
50	GO:0000156: phosphorelay response regulator activity	3.71E-03
51	GO:0004602: glutathione peroxidase activity	3.71E-03
52	GO:0004435: phosphatidylinositol phospholipase C activity	3.71E-03
53	GO:0015140: malate transmembrane transporter activity	4.38E-03
54	GO:0004033: aldo-keto reductase (NADP) activity	5.08E-03
55	GO:0004564: beta-fructofuranosidase activity	5.08E-03
56	GO:0102483: scopolin beta-glucosidase activity	5.54E-03
57	GO:0008353: RNA polymerase II carboxy-terminal domain kinase activity	5.82E-03
58	GO:0032041: NAD-dependent histone deacetylase activity (H3-K14 specific)	5.82E-03
59	GO:0003677: DNA binding	5.85E-03
60	GO:0015297: antiporter activity	6.43E-03
61	GO:0071949: FAD binding	6.60E-03
62	GO:0000989: transcription factor activity, transcription factor binding	6.60E-03
63	GO:0009815: 1-aminocyclopropane-1-carboxylate oxidase activity	6.60E-03
64	GO:0004575: sucrose alpha-glucosidase activity	7.41E-03
65	GO:0008270: zinc ion binding	8.14E-03
66	GO:0008422: beta-glucosidase activity	8.50E-03
67	GO:0047372: acylglycerol lipase activity	9.14E-03
68	GO:0004439: phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity	1.01E-02
69	GO:0004565: beta-galactosidase activity	1.10E-02
70	GO:0004022: alcohol dehydrogenase (NAD) activity	1.10E-02
71	GO:0005315: inorganic phosphate transmembrane transporter activity	1.10E-02
72	GO:0005262: calcium channel activity	1.10E-02
73	GO:0008168: methyltransferase activity	1.13E-02
74	GO:0008131: primary amine oxidase activity	1.20E-02
75	GO:0003712: transcription cofactor activity	1.30E-02
76	GO:0015171: amino acid transmembrane transporter activity	1.51E-02
77	GO:0004407: histone deacetylase activity	1.51E-02
78	GO:0005216: ion channel activity	1.62E-02
79	GO:0008324: cation transmembrane transporter activity	1.62E-02
80	GO:0051087: chaperone binding	1.62E-02
81	GO:0005215: transporter activity	1.72E-02
82	GO:0019706: protein-cysteine S-palmitoyltransferase activity	1.73E-02
83	GO:0016874: ligase activity	1.82E-02
84	GO:0003727: single-stranded RNA binding	2.08E-02
85	GO:0008514: organic anion transmembrane transporter activity	2.08E-02
86	GO:0016705: oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen	2.49E-02
87	GO:0005351: sugar:proton symporter activity	3.27E-02
88	GO:0016301: kinase activity	3.58E-02
89	GO:0008375: acetylglucosaminyltransferase activity	4.02E-02
90	GO:0004693: cyclin-dependent protein serine/threonine kinase activity	4.81E-02
91	GO:0050897: cobalt ion binding	4.97E-02

Rank	GO Term	Adjusted P value
1	GO:0009783: photosystem II antenna complex	0.00E+00
2	GO:0009522: photosystem I	5.57E-14
3	GO:0010287: plastoglobule	2.00E-12
4	GO:0030076: light-harvesting complex	4.60E-12
5	GO:0009534: chloroplast thylakoid	1.17E-11
6	GO:0009535: chloroplast thylakoid membrane	1.78E-11
7	GO:0009579: thylakoid	1.48E-10
8	GO:0009941: chloroplast envelope	1.51E-10
9	GO:0016021: integral component of membrane	2.55E-06
10	GO:0009523: photosystem II	2.12E-05
11	GO:0009517: PSII associated light-harvesting complex II	5.45E-05
12	GO:0016020: membrane	7.20E-05
13	GO:0042651: thylakoid membrane	1.16E-04
14	GO:0009507: chloroplast	1.86E-04
15	GO:0009538: photosystem I reaction center	2.83E-04
16	GO:0009898: cytoplasmic side of plasma membrane	1.96E-03
17	GO:0032586: protein storage vacuole membrane	1.96E-03
18	GO:0005798: Golgi-associated vesicle	3.08E-03
19	GO:0030127: COPII vesicle coat	3.08E-03
20	GO:0034707: chloride channel complex	3.08E-03
21	GO:0009533: chloroplast stromal thylakoid	4.38E-03
22	GO:0000326: protein storage vacuole	5.82E-03
23	GO:0010494: cytoplasmic stress granule	6.60E-03
24	GO:0005622: intracellular	1.16E-02
25	GO:0030095: chloroplast photosystem II	1.20E-02
26	GO:0031966: mitochondrial membrane	1.26E-02
27	GO:0005769: early endosome	1.40E-02
28	GO:0009654: photosystem II oxygen evolving complex	1.62E-02
29	GO:0005777: peroxisome	1.89E-02
30	GO:0015629: actin cytoskeleton	1.96E-02
31	GO:0019898: extrinsic component of membrane	2.72E-02
32	GO:0000932: P-body	3.72E-02
33	GO:0005667: transcription factor complex	4.02E-02
34	GO:0000151: ubiquitin ligase complex	4.49E-02
35	GO:0009707: chloroplast outer membrane	4.49E-02