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

AT4G28660

GO-BP
GO-MF
GO-CC
RankGO TermAdjusted P value
1GO:1901401: regulation of tetrapyrrole metabolic process0.00E+00
2GO:0010323: negative regulation of isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway0.00E+00
3GO:1901918: negative regulation of exoribonuclease activity0.00E+00
4GO:0098586: cellular response to virus0.00E+00
5GO:0017009: protein-phycocyanobilin linkage0.00E+00
6GO:0042821: pyridoxal biosynthetic process0.00E+00
7GO:0042820: vitamin B6 catabolic process0.00E+00
8GO:0015882: L-ascorbic acid transport0.00E+00
9GO:0018316: peptide cross-linking via L-cystine0.00E+00
10GO:0019265: glycine biosynthetic process, by transamination of glyoxylate0.00E+00
11GO:0051246: regulation of protein metabolic process0.00E+00
12GO:0009658: chloroplast organization1.04E-07
13GO:0015995: chlorophyll biosynthetic process9.20E-07
14GO:0080005: photosystem stoichiometry adjustment1.85E-06
15GO:0048564: photosystem I assembly2.78E-06
16GO:0015979: photosynthesis5.56E-06
17GO:0090391: granum assembly6.80E-06
18GO:0010258: NADH dehydrogenase complex (plastoquinone) assembly1.57E-05
19GO:0010207: photosystem II assembly2.58E-05
20GO:0019253: reductive pentose-phosphate cycle2.58E-05
21GO:0018298: protein-chromophore linkage3.04E-05
22GO:0016123: xanthophyll biosynthetic process4.65E-05
23GO:0016120: carotene biosynthetic process4.65E-05
24GO:0055114: oxidation-reduction process6.74E-05
25GO:0010190: cytochrome b6f complex assembly6.86E-05
26GO:0010028: xanthophyll cycle1.98E-04
27GO:0006419: alanyl-tRNA aminoacylation1.98E-04
28GO:0010362: negative regulation of anion channel activity by blue light1.98E-04
29GO:0009443: pyridoxal 5'-phosphate salvage1.98E-04
30GO:0031426: polycistronic mRNA processing1.98E-04
31GO:0033506: glucosinolate biosynthetic process from homomethionine1.98E-04
32GO:1904966: positive regulation of vitamin E biosynthetic process1.98E-04
33GO:0010322: regulation of isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway1.98E-04
34GO:0071277: cellular response to calcium ion1.98E-04
35GO:1904964: positive regulation of phytol biosynthetic process1.98E-04
36GO:0042371: vitamin K biosynthetic process1.98E-04
37GO:0071454: cellular response to anoxia1.98E-04
38GO:0071461: cellular response to redox state1.98E-04
39GO:0006436: tryptophanyl-tRNA aminoacylation1.98E-04
40GO:0009657: plastid organization2.01E-04
41GO:0009773: photosynthetic electron transport in photosystem I3.97E-04
42GO:0080153: negative regulation of reductive pentose-phosphate cycle4.43E-04
43GO:0010275: NAD(P)H dehydrogenase complex assembly4.43E-04
44GO:0046741: transport of virus in host, tissue to tissue4.43E-04
45GO:1902326: positive regulation of chlorophyll biosynthetic process4.43E-04
46GO:2000030: regulation of response to red or far red light4.43E-04
47GO:0034755: iron ion transmembrane transport4.43E-04
48GO:0000256: allantoin catabolic process4.43E-04
49GO:0080183: response to photooxidative stress4.43E-04
50GO:0009767: photosynthetic electron transport chain5.18E-04
51GO:0006013: mannose metabolic process7.22E-04
52GO:0010136: ureide catabolic process7.22E-04
53GO:0006696: ergosterol biosynthetic process7.22E-04
54GO:0009644: response to high light intensity8.42E-04
55GO:0071484: cellular response to light intensity1.03E-03
56GO:0051085: chaperone mediated protein folding requiring cofactor1.03E-03
57GO:0010239: chloroplast mRNA processing1.03E-03
58GO:0090307: mitotic spindle assembly1.03E-03
59GO:0006809: nitric oxide biosynthetic process1.03E-03
60GO:0006145: purine nucleobase catabolic process1.03E-03
61GO:0051415: interphase microtubule nucleation by interphase microtubule organizing center1.03E-03
62GO:0043572: plastid fission1.03E-03
63GO:0006986: response to unfolded protein1.03E-03
64GO:2001141: regulation of RNA biosynthetic process1.03E-03
65GO:0006364: rRNA processing1.10E-03
66GO:0016117: carotenoid biosynthetic process1.34E-03
67GO:0009765: photosynthesis, light harvesting1.37E-03
68GO:0031122: cytoplasmic microtubule organization1.37E-03
69GO:0006021: inositol biosynthetic process1.37E-03
70GO:0009902: chloroplast relocation1.37E-03
71GO:0009735: response to cytokinin1.40E-03
72GO:0008033: tRNA processing1.45E-03
73GO:0080167: response to karrikin1.56E-03
74GO:0035434: copper ion transmembrane transport1.74E-03
75GO:0010117: photoprotection1.74E-03
76GO:0009791: post-embryonic development1.79E-03
77GO:0010193: response to ozone1.92E-03
78GO:0042549: photosystem II stabilization2.14E-03
79GO:0046855: inositol phosphate dephosphorylation2.14E-03
80GO:0009643: photosynthetic acclimation2.14E-03
81GO:0050665: hydrogen peroxide biosynthetic process2.14E-03
82GO:0015977: carbon fixation2.57E-03
83GO:0009854: oxidative photosynthetic carbon pathway2.57E-03
84GO:0010019: chloroplast-nucleus signaling pathway2.57E-03
85GO:0010027: thylakoid membrane organization2.76E-03
86GO:0006401: RNA catabolic process3.03E-03
87GO:0009772: photosynthetic electron transport in photosystem II3.03E-03
88GO:0010196: nonphotochemical quenching3.03E-03
89GO:0009645: response to low light intensity stimulus3.03E-03
90GO:0006400: tRNA modification3.03E-03
91GO:0000105: histidine biosynthetic process3.51E-03
92GO:0006402: mRNA catabolic process3.51E-03
93GO:0009642: response to light intensity3.51E-03
94GO:0042255: ribosome assembly3.51E-03
95GO:0006353: DNA-templated transcription, termination3.51E-03
96GO:0009704: de-etiolation3.51E-03
97GO:0071482: cellular response to light stimulus4.02E-03
98GO:0032544: plastid translation4.02E-03
99GO:0009637: response to blue light4.54E-03
100GO:0098656: anion transmembrane transport4.54E-03
101GO:0009853: photorespiration4.54E-03
102GO:0009821: alkaloid biosynthetic process4.54E-03
103GO:0048507: meristem development4.54E-03
104GO:0090333: regulation of stomatal closure4.54E-03
105GO:0000373: Group II intron splicing4.54E-03
106GO:0009638: phototropism5.10E-03
107GO:0009098: leucine biosynthetic process5.10E-03
108GO:0031425: chloroplast RNA processing5.10E-03
109GO:0006259: DNA metabolic process5.67E-03
110GO:0045036: protein targeting to chloroplast5.67E-03
111GO:0009744: response to sucrose5.85E-03
112GO:0010114: response to red light5.85E-03
113GO:0006265: DNA topological change6.27E-03
114GO:0043085: positive regulation of catalytic activity6.27E-03
115GO:0006879: cellular iron ion homeostasis6.27E-03
116GO:0006352: DNA-templated transcription, initiation6.27E-03
117GO:0006790: sulfur compound metabolic process6.89E-03
118GO:0042538: hyperosmotic salinity response7.34E-03
119GO:0009725: response to hormone7.52E-03
120GO:0005986: sucrose biosynthetic process7.52E-03
121GO:0006006: glucose metabolic process7.52E-03
122GO:0034605: cellular response to heat8.19E-03
123GO:0010020: chloroplast fission8.19E-03
124GO:0019853: L-ascorbic acid biosynthetic process8.87E-03
125GO:0046854: phosphatidylinositol phosphorylation8.87E-03
126GO:0006096: glycolytic process9.33E-03
127GO:0009409: response to cold9.55E-03
128GO:0006825: copper ion transport1.10E-02
129GO:0051302: regulation of cell division1.10E-02
130GO:0006418: tRNA aminoacylation for protein translation1.10E-02
131GO:0006810: transport1.10E-02
132GO:0007017: microtubule-based process1.10E-02
133GO:0009768: photosynthesis, light harvesting in photosystem I1.10E-02
134GO:0016226: iron-sulfur cluster assembly1.26E-02
135GO:0080092: regulation of pollen tube growth1.26E-02
136GO:0009306: protein secretion1.42E-02
137GO:0070417: cellular response to cold1.50E-02
138GO:0010118: stomatal movement1.59E-02
139GO:0006606: protein import into nucleus1.59E-02
140GO:0000413: protein peptidyl-prolyl isomerization1.59E-02
141GO:0007059: chromosome segregation1.76E-02
142GO:0015986: ATP synthesis coupled proton transport1.76E-02
143GO:0000302: response to reactive oxygen species1.94E-02
144GO:0007623: circadian rhythm1.95E-02
145GO:0032502: developmental process2.04E-02
146GO:0019761: glucosinolate biosynthetic process2.04E-02
147GO:0010468: regulation of gene expression2.33E-02
148GO:0010286: heat acclimation2.33E-02
149GO:0009816: defense response to bacterium, incompatible interaction2.63E-02
150GO:0009416: response to light stimulus2.66E-02
151GO:0042128: nitrate assimilation2.73E-02
152GO:0009817: defense response to fungus, incompatible interaction3.05E-02
153GO:0048481: plant ovule development3.05E-02
154GO:0042254: ribosome biogenesis3.08E-02
155GO:0000160: phosphorelay signal transduction system3.16E-02
156GO:0009407: toxin catabolic process3.27E-02
157GO:0010218: response to far red light3.27E-02
158GO:0007568: aging3.38E-02
159GO:0006457: protein folding3.66E-02
160GO:0046686: response to cadmium ion3.75E-02
161GO:0046777: protein autophosphorylation3.99E-02
162GO:0009636: response to toxic substance4.70E-02
RankGO TermAdjusted P value
1GO:0035798: 2-alkenal reductase (NADP+) activity0.00E+00
2GO:0016767: geranylgeranyl-diphosphate geranylgeranyltransferase activity0.00E+00
3GO:0050281: serine-glyoxylate transaminase activity0.00E+00
4GO:0050236: pyridoxine:NADP 4-dehydrogenase activity0.00E+00
5GO:0071522: ureidoglycine aminohydrolase activity0.00E+00
6GO:0045435: lycopene epsilon cyclase activity0.00E+00
7GO:0004760: serine-pyruvate transaminase activity0.00E+00
8GO:0015229: L-ascorbic acid transporter activity0.00E+00
9GO:0046905: phytoene synthase activity0.00E+00
10GO:0048529: magnesium-protoporphyrin IX monomethyl ester (oxidative) cyclase activity0.00E+00
11GO:0008935: 1,4-dihydroxy-2-naphthoyl-CoA synthase activity0.00E+00
12GO:0008942: nitrite reductase [NAD(P)H] activity0.00E+00
13GO:0019899: enzyme binding1.82E-06
14GO:0048038: quinone binding8.11E-06
15GO:0016851: magnesium chelatase activity1.57E-05
16GO:0016655: oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor2.88E-05
17GO:0004654: polyribonucleotide nucleotidyltransferase activity1.98E-04
18GO:0010347: L-galactose-1-phosphate phosphatase activity1.98E-04
19GO:0035671: enone reductase activity1.98E-04
20GO:0046906: tetrapyrrole binding1.98E-04
21GO:0004813: alanine-tRNA ligase activity1.98E-04
22GO:0051996: squalene synthase activity1.98E-04
23GO:0080105: 6-methylthiopropyl glucosinolate S-oxygenase activity1.98E-04
24GO:0004830: tryptophan-tRNA ligase activity1.98E-04
25GO:0003879: ATP phosphoribosyltransferase activity1.98E-04
26GO:0030941: chloroplast targeting sequence binding1.98E-04
27GO:0016168: chlorophyll binding3.10E-04
28GO:0019843: rRNA binding3.54E-04
29GO:0080102: 3-methylthiopropyl glucosinolate S-oxygenase activity4.43E-04
30GO:0052832: inositol monophosphate 3-phosphatase activity4.43E-04
31GO:0080104: 5-methylthiopropyl glucosinolate S-oxygenase activity4.43E-04
32GO:0008934: inositol monophosphate 1-phosphatase activity4.43E-04
33GO:0052833: inositol monophosphate 4-phosphatase activity4.43E-04
34GO:0080106: 7-methylthiopropyl glucosinolate S-oxygenase activity4.43E-04
35GO:0047100: glyceraldehyde-3-phosphate dehydrogenase (NADP+) (phosphorylating) activity4.43E-04
36GO:0004310: farnesyl-diphosphate farnesyltransferase activity4.43E-04
37GO:0003862: 3-isopropylmalate dehydrogenase activity4.43E-04
38GO:0016620: oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor7.22E-04
39GO:0010277: chlorophyllide a oxygenase [overall] activity7.22E-04
40GO:0032947: protein complex scaffold7.22E-04
41GO:0004148: dihydrolipoyl dehydrogenase activity7.22E-04
42GO:0003955: NAD(P)H dehydrogenase (quinone) activity7.22E-04
43GO:0080103: 4-methylthiopropyl glucosinolate S-oxygenase activity7.22E-04
44GO:0050307: sucrose-phosphate phosphatase activity7.22E-04
45GO:0070402: NADPH binding7.22E-04
46GO:0051537: 2 iron, 2 sulfur cluster binding8.42E-04
47GO:0016984: ribulose-bisphosphate carboxylase activity1.03E-03
48GO:0052853: long-chain-(S)-2-hydroxy-long-chain-acid oxidase activity1.03E-03
49GO:0052854: medium-chain-(S)-2-hydroxy-acid oxidase activity1.03E-03
50GO:0004742: dihydrolipoyllysine-residue acetyltransferase activity1.03E-03
51GO:0048027: mRNA 5'-UTR binding1.03E-03
52GO:0080107: 8-methylthiopropyl glucosinolate S-oxygenase activity1.03E-03
53GO:0052852: very-long-chain-(S)-2-hydroxy-acid oxidase activity1.03E-03
54GO:0009882: blue light photoreceptor activity1.03E-03
55GO:0022891: substrate-specific transmembrane transporter activity1.14E-03
56GO:0003727: single-stranded RNA binding1.24E-03
57GO:0001053: plastid sigma factor activity1.37E-03
58GO:0051861: glycolipid binding1.37E-03
59GO:0008453: alanine-glyoxylate transaminase activity1.37E-03
60GO:0016987: sigma factor activity1.37E-03
61GO:0043015: gamma-tubulin binding1.37E-03
62GO:0043495: protein anchor1.37E-03
63GO:0016616: oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor1.37E-03
64GO:0008891: glycolate oxidase activity1.37E-03
65GO:0008080: N-acetyltransferase activity1.56E-03
66GO:0010181: FMN binding1.67E-03
67GO:0051011: microtubule minus-end binding1.74E-03
68GO:0015631: tubulin binding2.57E-03
69GO:0008441: 3'(2'),5'-bisphosphate nucleotidase activity2.57E-03
70GO:0004559: alpha-mannosidase activity2.57E-03
71GO:0004033: aldo-keto reductase (NADP) activity3.51E-03
72GO:0005375: copper ion transmembrane transporter activity4.02E-03
73GO:0003918: DNA topoisomerase type II (ATP-hydrolyzing) activity4.02E-03
74GO:0016844: strictosidine synthase activity5.10E-03
75GO:0005381: iron ion transmembrane transporter activity5.10E-03
76GO:0050661: NADP binding5.17E-03
77GO:0000287: magnesium ion binding5.83E-03
78GO:0005089: Rho guanyl-nucleotide exchange factor activity6.27E-03
79GO:0000049: tRNA binding6.89E-03
80GO:0051287: NAD binding7.08E-03
81GO:0000155: phosphorelay sensor kinase activity7.52E-03
82GO:0000175: 3'-5'-exoribonuclease activity7.52E-03
83GO:0005315: inorganic phosphate transmembrane transporter activity7.52E-03
84GO:0016491: oxidoreductase activity9.10E-03
85GO:0031409: pigment binding9.57E-03
86GO:0051536: iron-sulfur cluster binding1.03E-02
87GO:0051087: chaperone binding1.10E-02
88GO:0043424: protein histidine kinase binding1.10E-02
89GO:0009055: electron carrier activity1.41E-02
90GO:0008514: organic anion transmembrane transporter activity1.42E-02
91GO:0004499: N,N-dimethylaniline monooxygenase activity1.42E-02
92GO:0016705: oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen1.45E-02
93GO:0004812: aminoacyl-tRNA ligase activity1.50E-02
94GO:0046933: proton-transporting ATP synthase activity, rotational mechanism1.67E-02
95GO:0008565: protein transporter activity1.69E-02
96GO:0016853: isomerase activity1.76E-02
97GO:0004872: receptor activity1.85E-02
98GO:0005506: iron ion binding1.91E-02
99GO:0005200: structural constituent of cytoskeleton2.33E-02
100GO:0016597: amino acid binding2.42E-02
101GO:0042802: identical protein binding2.48E-02
102GO:0050897: cobalt ion binding3.38E-02
103GO:0050660: flavin adenine dinucleotide binding3.49E-02
104GO:0003746: translation elongation factor activity3.61E-02
105GO:0004497: monooxygenase activity3.74E-02
106GO:0004364: glutathione transferase activity4.20E-02
107GO:0043621: protein self-association4.57E-02
108GO:0005198: structural molecule activity4.70E-02
109GO:0003755: peptidyl-prolyl cis-trans isomerase activity4.82E-02
RankGO TermAdjusted P value
1GO:0009507: chloroplast6.53E-49
2GO:0009535: chloroplast thylakoid membrane1.22E-32
3GO:0009941: chloroplast envelope7.19E-16
4GO:0009570: chloroplast stroma2.39E-15
5GO:0009534: chloroplast thylakoid2.38E-13
6GO:0009579: thylakoid3.97E-12
7GO:0009543: chloroplast thylakoid lumen2.54E-06
8GO:0010598: NAD(P)H dehydrogenase complex (plastoquinone)5.71E-06
9GO:0009706: chloroplast inner membrane2.26E-05
10GO:0031969: chloroplast membrane3.97E-05
11GO:0042651: thylakoid membrane5.18E-05
12GO:0031977: thylakoid lumen6.73E-05
13GO:0009523: photosystem II1.57E-04
14GO:0009782: photosystem I antenna complex1.98E-04
15GO:0009515: granal stacked thylakoid1.98E-04
16GO:0010287: plastoglobule3.25E-04
17GO:0008274: gamma-tubulin ring complex4.43E-04
18GO:0045254: pyruvate dehydrogenase complex4.43E-04
19GO:0030095: chloroplast photosystem II5.82E-04
20GO:0009573: chloroplast ribulose bisphosphate carboxylase complex7.22E-04
21GO:0010007: magnesium chelatase complex7.22E-04
22GO:0033281: TAT protein transport complex7.22E-04
23GO:0009654: photosystem II oxygen evolving complex8.81E-04
24GO:0000923: equatorial microtubule organizing center1.03E-03
25GO:0030286: dynein complex1.37E-03
26GO:0009330: DNA topoisomerase complex (ATP-hydrolyzing)1.37E-03
27GO:0019898: extrinsic component of membrane1.79E-03
28GO:0045261: proton-transporting ATP synthase complex, catalytic core F(1)2.14E-03
29GO:0009536: plastid2.33E-03
30GO:0048046: apoplast2.43E-03
31GO:0010319: stromule2.46E-03
32GO:0009295: nucleoid2.46E-03
33GO:0009533: chloroplast stromal thylakoid3.03E-03
34GO:0031359: integral component of chloroplast outer membrane3.03E-03
35GO:0005759: mitochondrial matrix3.05E-03
36GO:0009707: chloroplast outer membrane3.59E-03
37GO:0042644: chloroplast nucleoid4.54E-03
38GO:0000922: spindle pole4.54E-03
39GO:0016324: apical plasma membrane5.67E-03
40GO:0009508: plastid chromosome7.52E-03
41GO:0030076: light-harvesting complex8.87E-03
42GO:0043234: protein complex9.57E-03
43GO:0005875: microtubule associated complex9.57E-03
44GO:0005778: peroxisomal membrane2.33E-02
45GO:0005777: peroxisome3.16E-02
46GO:0015934: large ribosomal subunit3.38E-02
47GO:0005739: mitochondrion5.00E-02
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Gene type



Gene DE type