Gene type: Transcription factor Metabolic gene Others DE type: Up Down Slightly_up Slightly_down Mixeded Others

GO Enrichment Analysis of Co-expressed Genes with

AT3G54500

GO-BP
GO-MF
GO-CC
RankGO TermAdjusted P value
1GO:0046677: response to antibiotic0.00E+00
2GO:1903428: positive regulation of reactive oxygen species biosynthetic process0.00E+00
3GO:0015843: methylammonium transport0.00E+00
4GO:1901401: regulation of tetrapyrrole metabolic process0.00E+00
5GO:0010114: response to red light4.30E-09
6GO:0009769: photosynthesis, light harvesting in photosystem II1.75E-08
7GO:0009645: response to low light intensity stimulus1.75E-08
8GO:0010218: response to far red light1.45E-07
9GO:0009644: response to high light intensity4.28E-07
10GO:0009768: photosynthesis, light harvesting in photosystem I6.74E-07
11GO:0009269: response to desiccation8.04E-07
12GO:0015979: photosynthesis9.60E-07
13GO:0018298: protein-chromophore linkage8.77E-06
14GO:0090333: regulation of stomatal closure1.30E-05
15GO:0009637: response to blue light1.31E-05
16GO:0051775: response to redox state2.88E-05
17GO:0071277: cellular response to calcium ion2.88E-05
18GO:0010207: photosystem II assembly3.80E-05
19GO:0042548: regulation of photosynthesis, light reaction7.28E-05
20GO:0010042: response to manganese ion7.28E-05
21GO:0050992: dimethylallyl diphosphate biosynthetic process7.28E-05
22GO:0009416: response to light stimulus1.21E-04
23GO:0007623: circadian rhythm1.26E-04
24GO:1902448: positive regulation of shade avoidance1.27E-04
25GO:0006107: oxaloacetate metabolic process1.89E-04
26GO:0015696: ammonium transport1.89E-04
27GO:2001141: regulation of RNA biosynthetic process1.89E-04
28GO:0009765: photosynthesis, light harvesting2.57E-04
29GO:0072488: ammonium transmembrane transport2.57E-04
30GO:0030104: water homeostasis2.57E-04
31GO:0006021: inositol biosynthetic process2.57E-04
32GO:0071483: cellular response to blue light2.57E-04
33GO:0006734: NADH metabolic process2.57E-04
34GO:0015995: chlorophyll biosynthetic process2.70E-04
35GO:0016123: xanthophyll biosynthetic process3.30E-04
36GO:0009643: photosynthetic acclimation4.06E-04
37GO:0050665: hydrogen peroxide biosynthetic process4.06E-04
38GO:0010264: myo-inositol hexakisphosphate biosynthetic process4.06E-04
39GO:0019288: isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway4.06E-04
40GO:0071470: cellular response to osmotic stress4.86E-04
41GO:0009854: oxidative photosynthetic carbon pathway4.86E-04
42GO:0030026: cellular manganese ion homeostasis5.68E-04
43GO:0009409: response to cold6.19E-04
44GO:0009585: red, far-red light phototransduction6.49E-04
45GO:0009704: de-etiolation6.55E-04
46GO:0071482: cellular response to light stimulus7.44E-04
47GO:0010262: somatic embryogenesis7.44E-04
48GO:0006098: pentose-phosphate shunt8.35E-04
49GO:0009624: response to nematode9.08E-04
50GO:0009688: abscisic acid biosynthetic process1.03E-03
51GO:0009641: shade avoidance1.03E-03
52GO:0006352: DNA-templated transcription, initiation1.13E-03
53GO:0006108: malate metabolic process1.34E-03
54GO:0055046: microgametogenesis1.34E-03
55GO:0006094: gluconeogenesis1.34E-03
56GO:0010223: secondary shoot formation1.45E-03
57GO:0046688: response to copper ion1.56E-03
58GO:0090351: seedling development1.56E-03
59GO:0010017: red or far-red light signaling pathway2.17E-03
60GO:0019748: secondary metabolic process2.17E-03
61GO:0071215: cellular response to abscisic acid stimulus2.30E-03
62GO:0009658: chloroplast organization2.34E-03
63GO:0010182: sugar mediated signaling pathway2.84E-03
64GO:0080167: response to karrikin2.89E-03
65GO:0019252: starch biosynthetic process3.13E-03
66GO:0008654: phospholipid biosynthetic process3.13E-03
67GO:0048510: regulation of timing of transition from vegetative to reproductive phase3.28E-03
68GO:0006810: transport4.04E-03
69GO:0051607: defense response to virus4.05E-03
70GO:0009408: response to heat4.25E-03
71GO:0048573: photoperiodism, flowering4.71E-03
72GO:0034599: cellular response to oxidative stress6.13E-03
73GO:0006099: tricarboxylic acid cycle6.13E-03
74GO:0042542: response to hydrogen peroxide6.89E-03
75GO:0009640: photomorphogenesis7.08E-03
76GO:0055114: oxidation-reduction process7.42E-03
77GO:0006812: cation transport8.29E-03
78GO:0045893: positive regulation of transcription, DNA-templated8.62E-03
79GO:0006096: glycolytic process9.79E-03
80GO:0048316: seed development1.00E-02
81GO:0009790: embryo development1.46E-02
82GO:0042742: defense response to bacterium1.53E-02
83GO:0006413: translational initiation1.56E-02
84GO:0016036: cellular response to phosphate starvation1.56E-02
85GO:0010228: vegetative to reproductive phase transition of meristem1.70E-02
86GO:0006970: response to osmotic stress2.36E-02
87GO:0044550: secondary metabolite biosynthetic process2.77E-02
88GO:0009793: embryo development ending in seed dormancy3.53E-02
89GO:0009735: response to cytokinin4.86E-02
RankGO TermAdjusted P value
1GO:0046554: malate dehydrogenase (NADP+) activity0.00E+00
2GO:0033840: NDP-glucose-starch glucosyltransferase activity0.00E+00
3GO:0051745: 4-hydroxy-3-methylbut-2-en-1-yl diphosphate reductase activity0.00E+00
4GO:0010486: manganese:proton antiporter activity0.00E+00
5GO:0048529: magnesium-protoporphyrin IX monomethyl ester (oxidative) cyclase activity0.00E+00
6GO:0035798: 2-alkenal reductase (NADP+) activity0.00E+00
7GO:0009540: zeaxanthin epoxidase [overall] activity0.00E+00
8GO:0031409: pigment binding4.62E-07
9GO:0016168: chlorophyll binding6.10E-06
10GO:0046429: 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase activity2.88E-05
11GO:0008746: NAD(P)+ transhydrogenase activity2.88E-05
12GO:0035671: enone reductase activity2.88E-05
13GO:0008886: glyceraldehyde-3-phosphate dehydrogenase (NADP+) (non-phosphorylating) activity2.88E-05
14GO:0004512: inositol-3-phosphate synthase activity7.28E-05
15GO:0004373: glycogen (starch) synthase activity1.27E-04
16GO:0016851: magnesium chelatase activity1.89E-04
17GO:0052852: very-long-chain-(S)-2-hydroxy-acid oxidase activity1.89E-04
18GO:0052853: long-chain-(S)-2-hydroxy-long-chain-acid oxidase activity1.89E-04
19GO:0052854: medium-chain-(S)-2-hydroxy-acid oxidase activity1.89E-04
20GO:0016987: sigma factor activity2.57E-04
21GO:0009011: starch synthase activity2.57E-04
22GO:0008891: glycolate oxidase activity2.57E-04
23GO:0001053: plastid sigma factor activity2.57E-04
24GO:0051538: 3 iron, 4 sulfur cluster binding3.30E-04
25GO:0004332: fructose-bisphosphate aldolase activity4.06E-04
26GO:0016615: malate dehydrogenase activity4.06E-04
27GO:0008519: ammonium transmembrane transporter activity4.06E-04
28GO:0030060: L-malate dehydrogenase activity4.86E-04
29GO:0071949: FAD binding8.35E-04
30GO:0005384: manganese ion transmembrane transporter activity9.29E-04
31GO:0004028: 3-chloroallyl aldehyde dehydrogenase activity9.29E-04
32GO:0003712: transcription cofactor activity1.56E-03
33GO:0003954: NADH dehydrogenase activity1.79E-03
34GO:0008324: cation transmembrane transporter activity1.92E-03
35GO:0010181: FMN binding2.99E-03
36GO:0016887: ATPase activity6.56E-03
37GO:0004185: serine-type carboxypeptidase activity7.08E-03
38GO:0003899: DNA-directed 5'-3' RNA polymerase activity8.71E-03
39GO:0016747: transferase activity, transferring acyl groups other than amino-acyl groups1.00E-02
40GO:0016874: ligase activity1.07E-02
41GO:0005215: transporter activity1.69E-02
42GO:0046872: metal ion binding3.08E-02
43GO:0005515: protein binding3.57E-02
44GO:0008289: lipid binding4.36E-02
RankGO TermAdjusted P value
1GO:0009579: thylakoid6.17E-10
2GO:0009517: PSII associated light-harvesting complex II1.29E-09
3GO:0009941: chloroplast envelope9.32E-09
4GO:0009507: chloroplast1.22E-08
5GO:0030076: light-harvesting complex3.77E-07
6GO:0009570: chloroplast stroma6.18E-07
7GO:0009535: chloroplast thylakoid membrane2.14E-06
8GO:0010287: plastoglobule2.25E-06
9GO:0009522: photosystem I2.26E-06
10GO:0009523: photosystem II2.57E-06
11GO:0031304: intrinsic component of mitochondrial inner membrane7.28E-05
12GO:0009569: chloroplast starch grain7.28E-05
13GO:0010007: magnesium chelatase complex1.27E-04
14GO:0009534: chloroplast thylakoid1.67E-04
15GO:0009706: chloroplast inner membrane9.08E-04
16GO:0016602: CCAAT-binding factor complex1.34E-03
17GO:0042651: thylakoid membrane1.92E-03
18GO:0048046: apoplast2.73E-03
19GO:0005770: late endosome2.84E-03
20GO:0010319: stromule3.89E-03
21GO:0031902: late endosome membrane6.69E-03
22GO:0031977: thylakoid lumen6.69E-03
23GO:0022626: cytosolic ribosome7.19E-03
24GO:0005777: peroxisome8.62E-03
25GO:0031969: chloroplast membrane2.61E-02
26GO:0005887: integral component of plasma membrane4.29E-02
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Gene type



Gene DE type