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:1903508: positive regulation of nucleic acid-templated transcription0.00E+00
2GO:1903428: positive regulation of reactive oxygen species biosynthetic process0.00E+00
3GO:0070584: mitochondrion morphogenesis0.00E+00
4GO:0071311: cellular response to acetate0.00E+00
5GO:1901401: regulation of tetrapyrrole metabolic process0.00E+00
6GO:0015970: guanosine tetraphosphate biosynthetic process0.00E+00
7GO:0071260: cellular response to mechanical stimulus0.00E+00
8GO:1902171: regulation of tocopherol cyclase activity0.00E+00
9GO:0046677: response to antibiotic0.00E+00
10GO:0018298: protein-chromophore linkage6.42E-09
11GO:0009768: photosynthesis, light harvesting in photosystem I1.69E-08
12GO:0009645: response to low light intensity stimulus5.62E-08
13GO:0015979: photosynthesis1.98E-07
14GO:0007623: circadian rhythm6.70E-07
15GO:0009637: response to blue light8.49E-07
16GO:0010114: response to red light1.50E-06
17GO:0009644: response to high light intensity1.79E-06
18GO:0009416: response to light stimulus2.48E-06
19GO:0010600: regulation of auxin biosynthetic process2.51E-06
20GO:0010244: response to low fluence blue light stimulus by blue low-fluence system9.56E-06
21GO:0010928: regulation of auxin mediated signaling pathway1.76E-05
22GO:0010218: response to far red light2.95E-05
23GO:0010362: negative regulation of anion channel activity by blue light4.74E-05
24GO:0080167: response to karrikin6.81E-05
25GO:0050992: dimethylallyl diphosphate biosynthetic process1.17E-04
26GO:0010155: regulation of proton transport1.17E-04
27GO:0006874: cellular calcium ion homeostasis1.28E-04
28GO:0010017: red or far-red light signaling pathway1.57E-04
29GO:0071230: cellular response to amino acid stimulus2.00E-04
30GO:0090153: regulation of sphingolipid biosynthetic process2.00E-04
31GO:1902448: positive regulation of shade avoidance2.00E-04
32GO:0010023: proanthocyanidin biosynthetic process3.94E-04
33GO:0009765: photosynthesis, light harvesting3.94E-04
34GO:2000306: positive regulation of photomorphogenesis3.94E-04
35GO:0015846: polyamine transport3.94E-04
36GO:0030104: water homeostasis3.94E-04
37GO:0009904: chloroplast accumulation movement5.00E-04
38GO:0016123: xanthophyll biosynthetic process5.00E-04
39GO:0015995: chlorophyll biosynthetic process5.06E-04
40GO:0000160: phosphorelay signal transduction system5.87E-04
41GO:0019288: isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway6.13E-04
42GO:0045962: positive regulation of development, heterochronic6.13E-04
43GO:0009723: response to ethylene6.37E-04
44GO:0009903: chloroplast avoidance movement7.31E-04
45GO:0010189: vitamin E biosynthetic process7.31E-04
46GO:0006351: transcription, DNA-templated7.34E-04
47GO:0051510: regulation of unidimensional cell growth8.54E-04
48GO:0010161: red light signaling pathway8.54E-04
49GO:1900056: negative regulation of leaf senescence8.54E-04
50GO:0009769: photosynthesis, light harvesting in photosystem II8.54E-04
51GO:0006355: regulation of transcription, DNA-templated9.45E-04
52GO:0009704: de-etiolation9.81E-04
53GO:0050821: protein stabilization9.81E-04
54GO:0009827: plant-type cell wall modification1.11E-03
55GO:0007186: G-protein coupled receptor signaling pathway1.11E-03
56GO:0009585: red, far-red light phototransduction1.18E-03
57GO:0090333: regulation of stomatal closure1.25E-03
58GO:0009638: phototropism1.40E-03
59GO:0048354: mucilage biosynthetic process involved in seed coat development1.40E-03
60GO:0010380: regulation of chlorophyll biosynthetic process1.40E-03
61GO:0009651: response to salt stress1.53E-03
62GO:0006535: cysteine biosynthetic process from serine1.55E-03
63GO:0009688: abscisic acid biosynthetic process1.55E-03
64GO:0006816: calcium ion transport1.70E-03
65GO:0018107: peptidyl-threonine phosphorylation2.03E-03
66GO:0009718: anthocyanin-containing compound biosynthetic process2.03E-03
67GO:0009785: blue light signaling pathway2.03E-03
68GO:0009266: response to temperature stimulus2.20E-03
69GO:0090351: seedling development2.38E-03
70GO:0019344: cysteine biosynthetic process2.74E-03
71GO:0003333: amino acid transmembrane transport3.12E-03
72GO:0048511: rhythmic process3.12E-03
73GO:0009269: response to desiccation3.12E-03
74GO:0055114: oxidation-reduction process3.40E-03
75GO:0009693: ethylene biosynthetic process3.52E-03
76GO:0071215: cellular response to abscisic acid stimulus3.52E-03
77GO:0019722: calcium-mediated signaling3.73E-03
78GO:0070417: cellular response to cold3.93E-03
79GO:0016310: phosphorylation4.02E-03
80GO:0034220: ion transmembrane transport4.15E-03
81GO:0010182: sugar mediated signaling pathway4.37E-03
82GO:0009741: response to brassinosteroid4.37E-03
83GO:0009658: chloroplast organization4.38E-03
84GO:0006814: sodium ion transport4.59E-03
85GO:0008654: phospholipid biosynthetic process4.81E-03
86GO:0009791: post-embryonic development4.81E-03
87GO:0044550: secondary metabolite biosynthetic process5.89E-03
88GO:0048573: photoperiodism, flowering7.28E-03
89GO:0009409: response to cold8.22E-03
90GO:0006811: ion transport8.37E-03
91GO:0009910: negative regulation of flower development8.65E-03
92GO:0010119: regulation of stomatal movement8.65E-03
93GO:0006865: amino acid transport8.93E-03
94GO:0009640: photomorphogenesis1.10E-02
95GO:0009965: leaf morphogenesis1.20E-02
96GO:0009909: regulation of flower development1.46E-02
97GO:0009737: response to abscisic acid1.46E-02
98GO:0035556: intracellular signal transduction1.50E-02
99GO:0009624: response to nematode1.75E-02
100GO:0018105: peptidyl-serine phosphorylation1.78E-02
101GO:0009742: brassinosteroid mediated signaling pathway1.82E-02
102GO:0009845: seed germination2.16E-02
103GO:0010150: leaf senescence2.57E-02
104GO:0010228: vegetative to reproductive phase transition of meristem2.66E-02
105GO:0009739: response to gibberellin2.79E-02
106GO:0009826: unidimensional cell growth3.42E-02
107GO:0006970: response to osmotic stress3.70E-02
108GO:0048366: leaf development3.95E-02
109GO:0007169: transmembrane receptor protein tyrosine kinase signaling pathway4.19E-02
110GO:0046777: protein autophosphorylation4.30E-02
111GO:0005975: carbohydrate metabolic process4.36E-02
112GO:0046686: response to cadmium ion4.48E-02
113GO:0045892: negative regulation of transcription, DNA-templated4.71E-02
RankGO TermAdjusted P value
1GO:0010276: phytol kinase activity0.00E+00
2GO:0051745: 4-hydroxy-3-methylbut-2-en-1-yl diphosphate reductase activity0.00E+00
3GO:0015276: ligand-gated ion channel activity0.00E+00
4GO:0048529: magnesium-protoporphyrin IX monomethyl ester (oxidative) cyclase activity0.00E+00
5GO:0009540: zeaxanthin epoxidase [overall] activity0.00E+00
6GO:0030504: inorganic diphosphate transmembrane transporter activity0.00E+00
7GO:0031409: pigment binding1.03E-08
8GO:0016168: chlorophyll binding3.06E-07
9GO:0008158: hedgehog receptor activity4.74E-05
10GO:0008066: glutamate receptor activity4.74E-05
11GO:0046429: 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase activity4.74E-05
12GO:0004970: ionotropic glutamate receptor activity9.03E-05
13GO:0005217: intracellular ligand-gated ion channel activity9.03E-05
14GO:0008728: GTP diphosphokinase activity1.17E-04
15GO:0050017: L-3-cyanoalanine synthase activity1.17E-04
16GO:0004103: choline kinase activity1.17E-04
17GO:0080045: quercetin 3'-O-glucosyltransferase activity1.17E-04
18GO:0010277: chlorophyllide a oxygenase [overall] activity2.00E-04
19GO:0016705: oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen2.04E-04
20GO:0009882: blue light photoreceptor activity2.94E-04
21GO:0015203: polyamine transmembrane transporter activity2.94E-04
22GO:0004930: G-protein coupled receptor activity3.94E-04
23GO:0016702: oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen5.00E-04
24GO:0051538: 3 iron, 4 sulfur cluster binding5.00E-04
25GO:0004462: lactoylglutathione lyase activity6.13E-04
26GO:0080046: quercetin 4'-O-glucosyltransferase activity6.13E-04
27GO:0004605: phosphatidate cytidylyltransferase activity6.13E-04
28GO:0004124: cysteine synthase activity7.31E-04
29GO:0015293: symporter activity9.98E-04
30GO:0003677: DNA binding1.07E-03
31GO:0071949: FAD binding1.25E-03
32GO:0015174: basic amino acid transmembrane transporter activity1.40E-03
33GO:0016308: 1-phosphatidylinositol-4-phosphate 5-kinase activity1.55E-03
34GO:0047372: acylglycerol lipase activity1.70E-03
35GO:0004672: protein kinase activity1.84E-03
36GO:0004022: alcohol dehydrogenase (NAD) activity2.03E-03
37GO:0005315: inorganic phosphate transmembrane transporter activity2.03E-03
38GO:0000155: phosphorelay sensor kinase activity2.03E-03
39GO:0005262: calcium channel activity2.03E-03
40GO:0004565: beta-galactosidase activity2.03E-03
41GO:0003712: transcription cofactor activity2.38E-03
42GO:0005216: ion channel activity2.93E-03
43GO:0008514: organic anion transmembrane transporter activity3.73E-03
44GO:0010181: FMN binding4.59E-03
45GO:0003700: transcription factor activity, sequence-specific DNA binding5.06E-03
46GO:0046872: metal ion binding5.17E-03
47GO:0004497: monooxygenase activity5.42E-03
48GO:0005506: iron ion binding5.49E-03
49GO:0000156: phosphorelay response regulator activity5.52E-03
50GO:0005515: protein binding5.52E-03
51GO:0004674: protein serine/threonine kinase activity1.15E-02
52GO:0051537: 2 iron, 2 sulfur cluster binding1.16E-02
53GO:0015171: amino acid transmembrane transporter activity1.46E-02
54GO:0080043: quercetin 3-O-glucosyltransferase activity1.64E-02
55GO:0080044: quercetin 7-O-glucosyltransferase activity1.64E-02
56GO:0016874: ligase activity1.67E-02
57GO:0019825: oxygen binding2.03E-02
58GO:0016829: lyase activity2.16E-02
59GO:0030170: pyridoxal phosphate binding2.20E-02
60GO:0015144: carbohydrate transmembrane transporter activity2.33E-02
61GO:0015297: antiporter activity2.49E-02
62GO:0016301: kinase activity2.50E-02
63GO:0005351: sugar:proton symporter activity2.53E-02
64GO:0008194: UDP-glycosyltransferase activity2.79E-02
65GO:0042802: identical protein binding3.05E-02
66GO:0005524: ATP binding3.40E-02
67GO:0008168: methyltransferase activity3.42E-02
68GO:0046983: protein dimerization activity3.85E-02
69GO:0020037: heme binding4.53E-02
70GO:0016709: oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen4.91E-02
RankGO TermAdjusted P value
1GO:0010287: plastoglobule4.97E-09
2GO:0009522: photosystem I8.23E-08
3GO:0009535: chloroplast thylakoid membrane1.19E-07
4GO:0009534: chloroplast thylakoid2.26E-07
5GO:0030076: light-harvesting complex1.18E-06
6GO:0009941: chloroplast envelope2.60E-06
7GO:0009579: thylakoid4.20E-06
8GO:0009523: photosystem II7.73E-06
9GO:0009507: chloroplast3.39E-05
10GO:0009898: cytoplasmic side of plasma membrane3.94E-04
11GO:0009517: PSII associated light-harvesting complex II3.94E-04
12GO:0009986: cell surface8.54E-04
13GO:0009538: photosystem I reaction center9.81E-04
14GO:0009706: chloroplast inner membrane1.66E-03
15GO:0016020: membrane1.76E-03
16GO:0042651: thylakoid membrane2.93E-03
17GO:0031969: chloroplast membrane5.42E-03
18GO:0016021: integral component of membrane2.50E-02
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Gene type



Gene DE type