co-expression network

GO Enrichment Analysis of Co-expressed Genes with

AT1G56500

GO-BP

GO-MF

GO-CC

Rank	GO Term	Adjusted P value
1	GO:0006399: tRNA metabolic process	0.00E+00
2	GO:0002184: cytoplasmic translational termination	0.00E+00
3	GO:0061635: regulation of protein complex stability	0.00E+00
4	GO:0042821: pyridoxal biosynthetic process	0.00E+00
5	GO:0035970: peptidyl-threonine dephosphorylation	0.00E+00
6	GO:0015805: S-adenosyl-L-methionine transport	0.00E+00
7	GO:0042820: vitamin B6 catabolic process	0.00E+00
8	GO:0099131: ATP hydrolysis coupled ion transmembrane transport	0.00E+00
9	GO:1904966: positive regulation of vitamin E biosynthetic process	0.00E+00
10	GO:1904964: positive regulation of phytol biosynthetic process	0.00E+00
11	GO:0015979: photosynthesis	1.06E-11
12	GO:0009773: photosynthetic electron transport in photosystem I	8.90E-08
13	GO:0009658: chloroplast organization	5.57E-07
14	GO:0030388: fructose 1,6-bisphosphate metabolic process	1.19E-06
15	GO:1902326: positive regulation of chlorophyll biosynthetic process	1.19E-06
16	GO:0071482: cellular response to light stimulus	2.29E-06
17	GO:0032544: plastid translation	2.29E-06
18	GO:0006000: fructose metabolic process	4.44E-06
19	GO:0010027: thylakoid membrane organization	8.96E-06
20	GO:0006094: gluconeogenesis	1.22E-05
21	GO:0018298: protein-chromophore linkage	1.57E-05
22	GO:0031365: N-terminal protein amino acid modification	3.14E-05
23	GO:0042549: photosystem II stabilization	4.69E-05
24	GO:0006412: translation	7.34E-05
25	GO:0006002: fructose 6-phosphate metabolic process	1.42E-04
26	GO:0009735: response to cytokinin	1.50E-04
27	GO:0043686: co-translational protein modification	1.56E-04
28	GO:0034337: RNA folding	1.56E-04
29	GO:0071588: hydrogen peroxide mediated signaling pathway	1.56E-04
30	GO:0009443: pyridoxal 5'-phosphate salvage	1.56E-04
31	GO:0000481: maturation of 5S rRNA	1.56E-04
32	GO:0043085: positive regulation of catalytic activity	2.86E-04
33	GO:0006352: DNA-templated transcription, initiation	2.86E-04
34	GO:0009750: response to fructose	2.86E-04
35	GO:0034755: iron ion transmembrane transport	3.55E-04
36	GO:0010115: regulation of abscisic acid biosynthetic process	3.55E-04
37	GO:0005986: sucrose biosynthetic process	3.74E-04
38	GO:0019253: reductive pentose-phosphate cycle	4.23E-04
39	GO:0010207: photosystem II assembly	4.23E-04
40	GO:0010581: regulation of starch biosynthetic process	5.82E-04
41	GO:0006954: inflammatory response	5.82E-04
42	GO:0006518: peptide metabolic process	5.82E-04
43	GO:0071492: cellular response to UV-A	5.82E-04
44	GO:0009768: photosynthesis, light harvesting in photosystem I	6.43E-04
45	GO:0042254: ribosome biogenesis	7.07E-04
46	GO:0055070: copper ion homeostasis	8.33E-04
47	GO:2001141: regulation of RNA biosynthetic process	8.33E-04
48	GO:0009152: purine ribonucleotide biosynthetic process	8.33E-04
49	GO:0046653: tetrahydrofolate metabolic process	8.33E-04
50	GO:0009800: cinnamic acid biosynthetic process	8.33E-04
51	GO:0009052: pentose-phosphate shunt, non-oxidative branch	8.33E-04
52	GO:0071486: cellular response to high light intensity	1.10E-03
53	GO:0009765: photosynthesis, light harvesting	1.10E-03
54	GO:0045727: positive regulation of translation	1.10E-03
55	GO:0015994: chlorophyll metabolic process	1.10E-03
56	GO:0006546: glycine catabolic process	1.10E-03
57	GO:0071483: cellular response to blue light	1.10E-03
58	GO:0055085: transmembrane transport	1.38E-03
59	GO:0035434: copper ion transmembrane transport	1.40E-03
60	GO:0006461: protein complex assembly	1.40E-03
61	GO:0009107: lipoate biosynthetic process	1.40E-03
62	GO:0080110: sporopollenin biosynthetic process	1.40E-03
63	GO:0006564: L-serine biosynthetic process	1.40E-03
64	GO:0006561: proline biosynthetic process	1.72E-03
65	GO:0000470: maturation of LSU-rRNA	1.72E-03
66	GO:0016554: cytidine to uridine editing	1.72E-03
67	GO:0006559: L-phenylalanine catabolic process	1.72E-03
68	GO:0010190: cytochrome b6f complex assembly	1.72E-03
69	GO:0010019: chloroplast-nucleus signaling pathway	2.06E-03
70	GO:0009082: branched-chain amino acid biosynthetic process	2.06E-03
71	GO:0000462: maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	2.06E-03
72	GO:0009099: valine biosynthetic process	2.06E-03
73	GO:0009645: response to low light intensity stimulus	2.42E-03
74	GO:0006400: tRNA modification	2.42E-03
75	GO:0016311: dephosphorylation	2.46E-03
76	GO:0048564: photosystem I assembly	2.80E-03
77	GO:0009704: de-etiolation	2.80E-03
78	GO:0032508: DNA duplex unwinding	2.80E-03
79	GO:0017004: cytochrome complex assembly	3.21E-03
80	GO:0009657: plastid organization	3.21E-03
81	GO:0019430: removal of superoxide radicals	3.21E-03
82	GO:0009097: isoleucine biosynthetic process	3.21E-03
83	GO:0009637: response to blue light	3.27E-03
84	GO:0034599: cellular response to oxidative stress	3.42E-03
85	GO:0000373: Group II intron splicing	3.63E-03
86	GO:0006098: pentose-phosphate shunt	3.63E-03
87	GO:0030001: metal ion transport	3.73E-03
88	GO:0009098: leucine biosynthetic process	4.06E-03
89	GO:1900865: chloroplast RNA modification	4.06E-03
90	GO:0010380: regulation of chlorophyll biosynthetic process	4.06E-03
91	GO:0010114: response to red light	4.21E-03
92	GO:0009688: abscisic acid biosynthetic process	4.52E-03
93	GO:0009644: response to high light intensity	4.55E-03
94	GO:0018119: peptidyl-cysteine S-nitrosylation	4.99E-03
95	GO:0009073: aromatic amino acid family biosynthetic process	4.99E-03
96	GO:0006879: cellular iron ion homeostasis	4.99E-03
97	GO:0009409: response to cold	5.34E-03
98	GO:0005983: starch catabolic process	5.48E-03
99	GO:0006364: rRNA processing	5.66E-03
100	GO:0009767: photosynthetic electron transport chain	5.98E-03
101	GO:0010628: positive regulation of gene expression	5.98E-03
102	GO:0045454: cell redox homeostasis	6.48E-03
103	GO:0006096: glycolytic process	6.69E-03
104	GO:0090351: seedling development	7.04E-03
105	GO:0005985: sucrose metabolic process	7.04E-03
106	GO:0032259: methylation	8.01E-03
107	GO:0010584: pollen exine formation	1.12E-02
108	GO:0009561: megagametogenesis	1.12E-02
109	GO:0009306: protein secretion	1.12E-02
110	GO:0042744: hydrogen peroxide catabolic process	1.15E-02
111	GO:0010182: sugar mediated signaling pathway	1.32E-02
112	GO:0006662: glycerol ether metabolic process	1.32E-02
113	GO:0006814: sodium ion transport	1.39E-02
114	GO:0000302: response to reactive oxygen species	1.54E-02
115	GO:0001666: response to hypoxia	1.99E-02
116	GO:0042128: nitrate assimilation	2.16E-02
117	GO:0015995: chlorophyll biosynthetic process	2.24E-02
118	GO:0009817: defense response to fungus, incompatible interaction	2.41E-02
119	GO:0010218: response to far red light	2.58E-02
120	GO:0009631: cold acclimation	2.67E-02
121	GO:0009853: photorespiration	2.85E-02
122	GO:0006839: mitochondrial transport	3.13E-02
123	GO:0055114: oxidation-reduction process	3.40E-02
124	GO:0051707: response to other organism	3.42E-02
125	GO:0009408: response to heat	3.96E-02
126	GO:0009793: embryo development ending in seed dormancy	4.11E-02
127	GO:0051603: proteolysis involved in cellular protein catabolic process	4.33E-02
128	GO:0008152: metabolic process	4.36E-02
129	GO:0006417: regulation of translation	4.54E-02

Rank	GO Term	Adjusted P value
1	GO:0008942: nitrite reductase [NAD(P)H] activity	0.00E+00
2	GO:0050236: pyridoxine:NADP 4-dehydrogenase activity	0.00E+00
3	GO:0010301: xanthoxin dehydrogenase activity	0.00E+00
4	GO:0047538: 2-carboxy-D-arabinitol-1-phosphatase activity	0.00E+00
5	GO:0019843: rRNA binding	1.25E-09
6	GO:0016168: chlorophyll binding	2.83E-07
7	GO:0042132: fructose 1,6-bisphosphate 1-phosphatase activity	1.19E-06
8	GO:0001053: plastid sigma factor activity	1.93E-05
9	GO:0016987: sigma factor activity	1.93E-05
10	GO:0043495: protein anchor	1.93E-05
11	GO:0005528: FK506 binding	2.63E-05
12	GO:0022891: substrate-specific transmembrane transporter activity	4.81E-05
13	GO:0019899: enzyme binding	8.77E-05
14	GO:0004033: aldo-keto reductase (NADP) activity	1.13E-04
15	GO:0042586: peptide deformylase activity	1.56E-04
16	GO:0008047: enzyme activator activity	2.46E-04
17	GO:0047746: chlorophyllase activity	3.55E-04
18	GO:0004618: phosphoglycerate kinase activity	3.55E-04
19	GO:0004617: phosphoglycerate dehydrogenase activity	3.55E-04
20	GO:0000095: S-adenosyl-L-methionine transmembrane transporter activity	3.55E-04
21	GO:0018708: thiol S-methyltransferase activity	3.55E-04
22	GO:0016630: protochlorophyllide reductase activity	3.55E-04
23	GO:0031072: heat shock protein binding	3.74E-04
24	GO:0031409: pigment binding	5.28E-04
25	GO:0016742: hydroxymethyl-, formyl- and related transferase activity	5.82E-04
26	GO:0070402: NADPH binding	5.82E-04
27	GO:0008864: formyltetrahydrofolate deformylase activity	5.82E-04
28	GO:0016531: copper chaperone activity	5.82E-04
29	GO:0019829: cation-transporting ATPase activity	5.82E-04
30	GO:0016992: lipoate synthase activity	5.82E-04
31	GO:0045548: phenylalanine ammonia-lyase activity	5.82E-04
32	GO:0004751: ribose-5-phosphate isomerase activity	5.82E-04
33	GO:0003755: peptidyl-prolyl cis-trans isomerase activity	6.13E-04
34	GO:0043023: ribosomal large subunit binding	8.33E-04
35	GO:0052654: L-leucine transaminase activity	8.33E-04
36	GO:0008097: 5S rRNA binding	8.33E-04
37	GO:0008508: bile acid:sodium symporter activity	8.33E-04
38	GO:0052655: L-valine transaminase activity	8.33E-04
39	GO:0052656: L-isoleucine transaminase activity	8.33E-04
40	GO:0003723: RNA binding	8.91E-04
41	GO:0003735: structural constituent of ribosome	9.08E-04
42	GO:0004659: prenyltransferase activity	1.10E-03
43	GO:0004084: branched-chain-amino-acid transaminase activity	1.10E-03
44	GO:0004791: thioredoxin-disulfide reductase activity	1.21E-03
45	GO:0050662: coenzyme binding	1.21E-03
46	GO:0046872: metal ion binding	1.23E-03
47	GO:0003959: NADPH dehydrogenase activity	1.40E-03
48	GO:0016671: oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor	1.58E-03
49	GO:0004332: fructose-bisphosphate aldolase activity	1.72E-03
50	GO:0004130: cytochrome-c peroxidase activity	1.72E-03
51	GO:0016688: L-ascorbate peroxidase activity	1.72E-03
52	GO:0051920: peroxiredoxin activity	2.06E-03
53	GO:0008235: metalloexopeptidase activity	2.42E-03
54	GO:0016209: antioxidant activity	2.80E-03
55	GO:0043022: ribosome binding	2.80E-03
56	GO:0005375: copper ion transmembrane transporter activity	3.21E-03
57	GO:0003824: catalytic activity	3.70E-03
58	GO:0008168: methyltransferase activity	3.74E-03
59	GO:0005381: iron ion transmembrane transporter activity	4.06E-03
60	GO:0004177: aminopeptidase activity	4.99E-03
61	GO:0015386: potassium:proton antiporter activity	4.99E-03
62	GO:0003899: DNA-directed 5'-3' RNA polymerase activity	5.66E-03
63	GO:0015662: ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism	5.98E-03
64	GO:0004022: alcohol dehydrogenase (NAD) activity	5.98E-03
65	GO:0008266: poly(U) RNA binding	6.50E-03
66	GO:0051082: unfolded protein binding	8.06E-03
67	GO:0015079: potassium ion transmembrane transporter activity	8.74E-03
68	GO:0047134: protein-disulfide reductase activity	1.19E-02
69	GO:0008080: N-acetyltransferase activity	1.32E-02
70	GO:0042626: ATPase activity, coupled to transmembrane movement of substances	1.78E-02
71	GO:0042802: identical protein binding	1.78E-02
72	GO:0016491: oxidoreductase activity	1.80E-02
73	GO:0016597: amino acid binding	1.92E-02
74	GO:0004721: phosphoprotein phosphatase activity	2.24E-02
75	GO:0015450: P-P-bond-hydrolysis-driven protein transmembrane transporter activity	2.41E-02
76	GO:0004222: metalloendopeptidase activity	2.58E-02
77	GO:0003993: acid phosphatase activity	2.94E-02
78	GO:0051539: 4 iron, 4 sulfur cluster binding	3.13E-02
79	GO:0004185: serine-type carboxypeptidase activity	3.42E-02
80	GO:0051537: 2 iron, 2 sulfur cluster binding	3.61E-02
81	GO:0016787: hydrolase activity	3.68E-02
82	GO:0005509: calcium ion binding	3.82E-02
83	GO:0051287: NAD binding	3.91E-02
84	GO:0005215: transporter activity	4.77E-02

Rank	GO Term	Adjusted P value
1	GO:0009507: chloroplast	2.42E-62
2	GO:0009570: chloroplast stroma	8.35E-28
3	GO:0009941: chloroplast envelope	2.09E-27
4	GO:0009535: chloroplast thylakoid membrane	1.69E-26
5	GO:0009579: thylakoid	1.91E-14
6	GO:0009534: chloroplast thylakoid	8.58E-12
7	GO:0009543: chloroplast thylakoid lumen	3.64E-11
8	GO:0031977: thylakoid lumen	1.07E-09
9	GO:0009523: photosystem II	7.07E-08
10	GO:0031969: chloroplast membrane	1.63E-05
11	GO:0009654: photosystem II oxygen evolving complex	3.10E-05
12	GO:0005840: ribosome	3.69E-05
13	GO:0019898: extrinsic component of membrane	9.77E-05
14	GO:0010319: stromule	1.56E-04
15	GO:0009782: photosystem I antenna complex	1.56E-04
16	GO:0010598: NAD(P)H dehydrogenase complex (plastoquinone)	1.73E-04
17	GO:0010287: plastoglobule	1.88E-04
18	GO:0030095: chloroplast photosystem II	4.23E-04
19	GO:0030076: light-harvesting complex	4.74E-04
20	GO:0042651: thylakoid membrane	6.43E-04
21	GO:0009840: chloroplastic endopeptidase Clp complex	2.06E-03
22	GO:0009533: chloroplast stromal thylakoid	2.42E-03
23	GO:0015934: large ribosomal subunit	2.99E-03
24	GO:0009536: plastid	4.49E-03
25	GO:0032040: small-subunit processome	5.48E-03
26	GO:0000312: plastid small ribosomal subunit	6.50E-03
27	GO:0015935: small ribosomal subunit	9.34E-03
28	GO:0016020: membrane	9.63E-03
29	GO:0009522: photosystem I	1.39E-02
30	GO:0030529: intracellular ribonucleoprotein complex	1.99E-02
31	GO:0048046: apoplast	2.91E-02