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

AT4G28025

GO-BP
GO-MF
GO-CC
RankGO TermAdjusted P value
1GO:0051484: isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway involved in terpenoid biosynthetic process0.00E+00
2GO:1901401: regulation of tetrapyrrole metabolic process0.00E+00
3GO:1901918: negative regulation of exoribonuclease activity0.00E+00
4GO:0098586: cellular response to virus0.00E+00
5GO:0042304: regulation of fatty acid biosynthetic process0.00E+00
6GO:0033231: carbohydrate export0.00E+00
7GO:0017009: protein-phycocyanobilin linkage0.00E+00
8GO:0042821: pyridoxal biosynthetic process0.00E+00
9GO:0042820: vitamin B6 catabolic process0.00E+00
10GO:1901965: endoplasmic reticulum to chloroplast transport0.00E+00
11GO:0015882: L-ascorbic acid transport0.00E+00
12GO:0019265: glycine biosynthetic process, by transamination of glyoxylate0.00E+00
13GO:2000013: regulation of arginine biosynthetic process via ornithine0.00E+00
14GO:0006399: tRNA metabolic process0.00E+00
15GO:0000256: allantoin catabolic process3.29E-06
16GO:0010136: ureide catabolic process1.18E-05
17GO:0015979: photosynthesis2.21E-05
18GO:0006145: purine nucleobase catabolic process2.67E-05
19GO:0015995: chlorophyll biosynthetic process5.75E-05
20GO:0018298: protein-chromophore linkage6.99E-05
21GO:0009658: chloroplast organization6.99E-05
22GO:0010190: cytochrome b6f complex assembly1.12E-04
23GO:0009643: photosynthetic acclimation1.12E-04
24GO:0034599: cellular response to oxidative stress1.17E-04
25GO:0009644: response to high light intensity1.95E-04
26GO:0048564: photosystem I assembly2.55E-04
27GO:0009642: response to light intensity2.55E-04
28GO:0006436: tryptophanyl-tRNA aminoacylation2.68E-04
29GO:0010028: xanthophyll cycle2.68E-04
30GO:0006419: alanyl-tRNA aminoacylation2.68E-04
31GO:1902334: fructose export from vacuole to cytoplasm2.68E-04
32GO:0009443: pyridoxal 5'-phosphate salvage2.68E-04
33GO:0010362: negative regulation of anion channel activity by blue light2.68E-04
34GO:0018002: N-terminal peptidyl-glutamic acid acetylation2.68E-04
35GO:0015755: fructose transport2.68E-04
36GO:0019646: aerobic electron transport chain2.68E-04
37GO:0031426: polycistronic mRNA processing2.68E-04
38GO:1904966: positive regulation of vitamin E biosynthetic process2.68E-04
39GO:0006475: internal protein amino acid acetylation2.68E-04
40GO:1990052: ER to chloroplast lipid transport2.68E-04
41GO:0033388: putrescine biosynthetic process from arginine2.68E-04
42GO:0071806: protein transmembrane transport2.68E-04
43GO:1904964: positive regulation of phytol biosynthetic process2.68E-04
44GO:0006474: N-terminal protein amino acid acetylation2.68E-04
45GO:0071277: cellular response to calcium ion2.68E-04
46GO:0017198: N-terminal peptidyl-serine acetylation2.68E-04
47GO:0042371: vitamin K biosynthetic process2.68E-04
48GO:0071482: cellular response to light stimulus3.14E-04
49GO:0009657: plastid organization3.14E-04
50GO:0016122: xanthophyll metabolic process5.89E-04
51GO:0010275: NAD(P)H dehydrogenase complex assembly5.89E-04
52GO:0046741: transport of virus in host, tissue to tissue5.89E-04
53GO:0080005: photosystem stoichiometry adjustment5.89E-04
54GO:0009915: phloem sucrose loading5.89E-04
55GO:0048314: embryo sac morphogenesis5.89E-04
56GO:1902326: positive regulation of chlorophyll biosynthetic process5.89E-04
57GO:0030187: melatonin biosynthetic process5.89E-04
58GO:0042548: regulation of photosynthesis, light reaction5.89E-04
59GO:0034755: iron ion transmembrane transport5.89E-04
60GO:0006435: threonyl-tRNA aminoacylation5.89E-04
61GO:0009446: putrescine biosynthetic process5.89E-04
62GO:0009767: photosynthetic electron transport chain7.86E-04
63GO:0006807: nitrogen compound metabolic process7.86E-04
64GO:0010207: photosystem II assembly8.84E-04
65GO:0090391: granum assembly9.55E-04
66GO:0009405: pathogenesis9.55E-04
67GO:0006013: mannose metabolic process9.55E-04
68GO:0051604: protein maturation9.55E-04
69GO:0090351: seedling development9.87E-04
70GO:0007623: circadian rhythm1.13E-03
71GO:0055114: oxidation-reduction process1.32E-03
72GO:0007017: microtubule-based process1.33E-03
73GO:0071484: cellular response to light intensity1.36E-03
74GO:0010239: chloroplast mRNA processing1.36E-03
75GO:0009052: pentose-phosphate shunt, non-oxidative branch1.36E-03
76GO:0051016: barbed-end actin filament capping1.36E-03
77GO:0046739: transport of virus in multicellular host1.36E-03
78GO:0042989: sequestering of actin monomers1.36E-03
79GO:0050482: arachidonic acid secretion1.36E-03
80GO:0043572: plastid fission1.36E-03
81GO:2001141: regulation of RNA biosynthetic process1.36E-03
82GO:0009765: photosynthesis, light harvesting1.83E-03
83GO:0015994: chlorophyll metabolic process1.83E-03
84GO:0006021: inositol biosynthetic process1.83E-03
85GO:0009902: chloroplast relocation1.83E-03
86GO:0006808: regulation of nitrogen utilization1.83E-03
87GO:0016123: xanthophyll biosynthetic process2.33E-03
88GO:0016558: protein import into peroxisome matrix2.33E-03
89GO:0030041: actin filament polymerization2.33E-03
90GO:0010117: photoprotection2.33E-03
91GO:0016120: carotene biosynthetic process2.33E-03
92GO:0006662: glycerol ether metabolic process2.39E-03
93GO:0009791: post-embryonic development2.75E-03
94GO:0042549: photosystem II stabilization2.88E-03
95GO:0019288: isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway2.88E-03
96GO:0006655: phosphatidylglycerol biosynthetic process2.88E-03
97GO:0009117: nucleotide metabolic process2.88E-03
98GO:0046855: inositol phosphate dephosphorylation2.88E-03
99GO:0000302: response to reactive oxygen species2.94E-03
100GO:0007264: small GTPase mediated signal transduction3.14E-03
101GO:0071470: cellular response to osmotic stress3.46E-03
102GO:0042372: phylloquinone biosynthetic process3.46E-03
103GO:0010189: vitamin E biosynthetic process3.46E-03
104GO:0048528: post-embryonic root development4.08E-03
105GO:0010196: nonphotochemical quenching4.08E-03
106GO:0009645: response to low light intensity stimulus4.08E-03
107GO:0006400: tRNA modification4.08E-03
108GO:0051510: regulation of unidimensional cell growth4.08E-03
109GO:0010027: thylakoid membrane organization4.25E-03
110GO:0006644: phospholipid metabolic process4.73E-03
111GO:0006605: protein targeting4.73E-03
112GO:0009704: de-etiolation4.73E-03
113GO:0042128: nitrate assimilation4.74E-03
114GO:0017004: cytochrome complex assembly5.42E-03
115GO:0006413: translational initiation5.47E-03
116GO:0006457: protein folding5.56E-03
117GO:0098656: anion transmembrane transport6.14E-03
118GO:0009821: alkaloid biosynthetic process6.14E-03
119GO:0090333: regulation of stomatal closure6.14E-03
120GO:0006783: heme biosynthetic process6.14E-03
121GO:0048507: meristem development6.14E-03
122GO:0006754: ATP biosynthetic process6.14E-03
123GO:0000373: Group II intron splicing6.14E-03
124GO:0007568: aging6.40E-03
125GO:0009793: embryo development ending in seed dormancy6.85E-03
126GO:0009638: phototropism6.90E-03
127GO:0006779: porphyrin-containing compound biosynthetic process6.90E-03
128GO:0009637: response to blue light7.02E-03
129GO:0009853: photorespiration7.02E-03
130GO:0045036: protein targeting to chloroplast7.68E-03
131GO:0006259: DNA metabolic process7.68E-03
132GO:0006782: protoporphyrinogen IX biosynthetic process7.68E-03
133GO:0006995: cellular response to nitrogen starvation7.68E-03
134GO:0006265: DNA topological change8.50E-03
135GO:0043085: positive regulation of catalytic activity8.50E-03
136GO:0009773: photosynthetic electron transport in photosystem I8.50E-03
137GO:0006879: cellular iron ion homeostasis8.50E-03
138GO:0006352: DNA-templated transcription, initiation8.50E-03
139GO:0009750: response to fructose8.50E-03
140GO:0006415: translational termination8.50E-03
141GO:0010114: response to red light9.06E-03
142GO:0006790: sulfur compound metabolic process9.35E-03
143GO:0016024: CDP-diacylglycerol biosynthetic process9.35E-03
144GO:0009718: anthocyanin-containing compound biosynthetic process1.02E-02
145GO:0005986: sucrose biosynthetic process1.02E-02
146GO:0006829: zinc II ion transport1.02E-02
147GO:0031347: regulation of defense response1.10E-02
148GO:0009266: response to temperature stimulus1.11E-02
149GO:0010020: chloroplast fission1.11E-02
150GO:0019853: L-ascorbic acid biosynthetic process1.21E-02
151GO:0046854: phosphatidylinositol phosphorylation1.21E-02
152GO:0006364: rRNA processing1.22E-02
153GO:0006833: water transport1.30E-02
154GO:0009416: response to light stimulus1.31E-02
155GO:0080167: response to karrikin1.37E-02
156GO:0080147: root hair cell development1.40E-02
157GO:0009863: salicylic acid mediated signaling pathway1.40E-02
158GO:0007010: cytoskeleton organization1.40E-02
159GO:0006825: copper ion transport1.50E-02
160GO:0051302: regulation of cell division1.50E-02
161GO:0008299: isoprenoid biosynthetic process1.50E-02
162GO:0006418: tRNA aminoacylation for protein translation1.50E-02
163GO:0009768: photosynthesis, light harvesting in photosystem I1.50E-02
164GO:0051260: protein homooligomerization1.61E-02
165GO:0010431: seed maturation1.61E-02
166GO:0051321: meiotic cell cycle1.61E-02
167GO:0003333: amino acid transmembrane transport1.61E-02
168GO:0019748: secondary metabolic process1.71E-02
169GO:0016226: iron-sulfur cluster assembly1.71E-02
170GO:0035428: hexose transmembrane transport1.71E-02
171GO:0045454: cell redox homeostasis1.72E-02
172GO:0006396: RNA processing1.80E-02
173GO:0040007: growth1.82E-02
174GO:0055085: transmembrane transport1.88E-02
175GO:0009306: protein secretion1.94E-02
176GO:0016117: carotenoid biosynthetic process2.05E-02
177GO:0070417: cellular response to cold2.05E-02
178GO:0010118: stomatal movement2.17E-02
179GO:0034220: ion transmembrane transport2.17E-02
180GO:0000413: protein peptidyl-prolyl isomerization2.17E-02
181GO:0046323: glucose import2.29E-02
182GO:0009845: seed germination2.37E-02
183GO:0007059: chromosome segregation2.41E-02
184GO:0009646: response to absence of light2.41E-02
185GO:0046686: response to cadmium ion2.58E-02
186GO:0010193: response to ozone2.65E-02
187GO:0006635: fatty acid beta-oxidation2.65E-02
188GO:0016032: viral process2.78E-02
189GO:0009816: defense response to bacterium, incompatible interaction3.59E-02
190GO:0010468: regulation of gene expression3.60E-02
191GO:0048481: plant ovule development4.17E-02
192GO:0000160: phosphorelay signal transduction system4.32E-02
193GO:0009813: flavonoid biosynthetic process4.32E-02
194GO:0048527: lateral root development4.62E-02
195GO:0042254: ribosome biogenesis4.74E-02
196GO:0000724: double-strand break repair via homologous recombination4.77E-02
RankGO TermAdjusted P value
1GO:0008942: nitrite reductase [NAD(P)H] activity0.00E+00
2GO:0015284: fructose uniporter activity0.00E+00
3GO:0035798: 2-alkenal reductase (NADP+) activity0.00E+00
4GO:0050281: serine-glyoxylate transaminase activity0.00E+00
5GO:0004059: aralkylamine N-acetyltransferase activity0.00E+00
6GO:0010307: acetylglutamate kinase regulator activity0.00E+00
7GO:0019144: ADP-sugar diphosphatase activity0.00E+00
8GO:0050236: pyridoxine:NADP 4-dehydrogenase activity0.00E+00
9GO:0022883: zinc efflux transmembrane transporter activity0.00E+00
10GO:0071522: ureidoglycine aminohydrolase activity0.00E+00
11GO:0009976: tocopherol cyclase activity0.00E+00
12GO:0015229: L-ascorbic acid transporter activity0.00E+00
13GO:0045435: lycopene epsilon cyclase activity0.00E+00
14GO:0003858: 3-hydroxybutyrate dehydrogenase activity0.00E+00
15GO:0004760: serine-pyruvate transaminase activity0.00E+00
16GO:0042623: ATPase activity, coupled0.00E+00
17GO:0030604: 1-deoxy-D-xylulose-5-phosphate reductoisomerase activity0.00E+00
18GO:0050126: N-carbamoylputrescine amidase activity0.00E+00
19GO:0048529: magnesium-protoporphyrin IX monomethyl ester (oxidative) cyclase activity0.00E+00
20GO:0008935: 1,4-dihydroxy-2-naphthoyl-CoA synthase activity0.00E+00
21GO:0070402: NADPH binding1.18E-05
22GO:0008080: N-acetyltransferase activity1.27E-05
23GO:0016853: isomerase activity2.59E-04
24GO:0010347: L-galactose-1-phosphate phosphatase activity2.68E-04
25GO:0016784: 3-mercaptopyruvate sulfurtransferase activity2.68E-04
26GO:0035671: enone reductase activity2.68E-04
27GO:1990189: peptide-serine-N-acetyltransferase activity2.68E-04
28GO:0080042: ADP-glucose pyrophosphohydrolase activity2.68E-04
29GO:0004813: alanine-tRNA ligase activity2.68E-04
30GO:0004008: copper-exporting ATPase activity2.68E-04
31GO:1990190: peptide-glutamate-N-acetyltransferase activity2.68E-04
32GO:0004830: tryptophan-tRNA ligase activity2.68E-04
33GO:0030941: chloroplast targeting sequence binding2.68E-04
34GO:0016168: chlorophyll binding5.44E-04
35GO:0080041: ADP-ribose pyrophosphohydrolase activity5.89E-04
36GO:0052832: inositol monophosphate 3-phosphatase activity5.89E-04
37GO:0004829: threonine-tRNA ligase activity5.89E-04
38GO:0008934: inositol monophosphate 1-phosphatase activity5.89E-04
39GO:0005353: fructose transmembrane transporter activity5.89E-04
40GO:0052833: inositol monophosphate 4-phosphatase activity5.89E-04
41GO:0008883: glutamyl-tRNA reductase activity5.89E-04
42GO:0010277: chlorophyllide a oxygenase [overall] activity9.55E-04
43GO:0003955: NAD(P)H dehydrogenase (quinone) activity9.55E-04
44GO:0050307: sucrose-phosphate phosphatase activity9.55E-04
45GO:0032947: protein complex scaffold9.55E-04
46GO:0004848: ureidoglycolate hydrolase activity9.55E-04
47GO:0008253: 5'-nucleotidase activity9.55E-04
48GO:0004148: dihydrolipoyl dehydrogenase activity9.55E-04
49GO:0004751: ribose-5-phosphate isomerase activity9.55E-04
50GO:0030267: glyoxylate reductase (NADP) activity9.55E-04
51GO:0004096: catalase activity9.55E-04
52GO:0035529: NADH pyrophosphatase activity1.36E-03
53GO:0048027: mRNA 5'-UTR binding1.36E-03
54GO:0004792: thiosulfate sulfurtransferase activity1.36E-03
55GO:0016149: translation release factor activity, codon specific1.36E-03
56GO:0016851: magnesium chelatase activity1.36E-03
57GO:0009882: blue light photoreceptor activity1.36E-03
58GO:0051537: 2 iron, 2 sulfur cluster binding1.44E-03
59GO:0022891: substrate-specific transmembrane transporter activity1.74E-03
60GO:0001053: plastid sigma factor activity1.83E-03
61GO:0005319: lipid transporter activity1.83E-03
62GO:0051861: glycolipid binding1.83E-03
63GO:0008453: alanine-glyoxylate transaminase activity1.83E-03
64GO:0016810: hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds1.83E-03
65GO:0016987: sigma factor activity1.83E-03
66GO:0043495: protein anchor1.83E-03
67GO:0003841: 1-acylglycerol-3-phosphate O-acyltransferase activity1.83E-03
68GO:0047134: protein-disulfide reductase activity2.05E-03
69GO:0004623: phospholipase A2 activity2.33E-03
70GO:0003785: actin monomer binding2.33E-03
71GO:0004791: thioredoxin-disulfide reductase activity2.56E-03
72GO:0004130: cytochrome-c peroxidase activity2.88E-03
73GO:0016462: pyrophosphatase activity2.88E-03
74GO:0016688: L-ascorbate peroxidase activity2.88E-03
75GO:0016671: oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor3.35E-03
76GO:0004559: alpha-mannosidase activity3.46E-03
77GO:0004616: phosphogluconate dehydrogenase (decarboxylating) activity3.46E-03
78GO:0008441: 3'(2'),5'-bisphosphate nucleotidase activity3.46E-03
79GO:0019899: enzyme binding4.08E-03
80GO:0004033: aldo-keto reductase (NADP) activity4.73E-03
81GO:0005375: copper ion transmembrane transporter activity5.42E-03
82GO:0003918: DNA topoisomerase type II (ATP-hydrolyzing) activity5.42E-03
83GO:0008553: hydrogen-exporting ATPase activity, phosphorylative mechanism6.14E-03
84GO:0003747: translation release factor activity6.14E-03
85GO:0016844: strictosidine synthase activity6.90E-03
86GO:0045309: protein phosphorylated amino acid binding6.90E-03
87GO:0005381: iron ion transmembrane transporter activity6.90E-03
88GO:0015174: basic amino acid transmembrane transporter activity6.90E-03
89GO:0008047: enzyme activator activity7.68E-03
90GO:0005089: Rho guanyl-nucleotide exchange factor activity8.50E-03
91GO:0019904: protein domain specific binding8.50E-03
92GO:0000049: tRNA binding9.35E-03
93GO:0031072: heat shock protein binding1.02E-02
94GO:0000155: phosphorelay sensor kinase activity1.02E-02
95GO:0015662: ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism1.02E-02
96GO:0005315: inorganic phosphate transmembrane transporter activity1.02E-02
97GO:0046872: metal ion binding1.03E-02
98GO:0003755: peptidyl-prolyl cis-trans isomerase activity1.06E-02
99GO:0016887: ATPase activity1.07E-02
100GO:0051119: sugar transmembrane transporter activity1.21E-02
101GO:0031409: pigment binding1.30E-02
102GO:0008233: peptidase activity1.34E-02
103GO:0031625: ubiquitin protein ligase binding1.36E-02
104GO:0051536: iron-sulfur cluster binding1.40E-02
105GO:0003954: NADH dehydrogenase activity1.40E-02
106GO:0005528: FK506 binding1.40E-02
107GO:0043424: protein histidine kinase binding1.50E-02
108GO:0004176: ATP-dependent peptidase activity1.61E-02
109GO:0003779: actin binding1.69E-02
110GO:0015035: protein disulfide oxidoreductase activity1.80E-02
111GO:0016746: transferase activity, transferring acyl groups1.80E-02
112GO:0008514: organic anion transmembrane transporter activity1.94E-02
113GO:0003727: single-stranded RNA binding1.94E-02
114GO:0004812: aminoacyl-tRNA ligase activity2.05E-02
115GO:0003924: GTPase activity2.24E-02
116GO:0016705: oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen2.25E-02
117GO:0005355: glucose transmembrane transporter activity2.41E-02
118GO:0010181: FMN binding2.41E-02
119GO:0009055: electron carrier activity2.45E-02
120GO:0019901: protein kinase binding2.53E-02
121GO:0008237: metallopeptidase activity3.18E-02
122GO:0016597: amino acid binding3.31E-02
123GO:0015250: water channel activity3.45E-02
124GO:0003743: translation initiation factor activity3.53E-02
125GO:0005506: iron ion binding3.65E-02
126GO:0042802: identical protein binding3.83E-02
127GO:0008236: serine-type peptidase activity4.02E-02
128GO:0005215: transporter activity4.31E-02
129GO:0015238: drug transmembrane transporter activity4.32E-02
130GO:0000287: magnesium ion binding4.57E-02
131GO:0030145: manganese ion binding4.62E-02
132GO:0050897: cobalt ion binding4.62E-02
133GO:0016706: oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors4.93E-02
RankGO TermAdjusted P value
1GO:0009507: chloroplast1.86E-43
2GO:0009535: chloroplast thylakoid membrane5.01E-23
3GO:0009534: chloroplast thylakoid5.62E-12
4GO:0009941: chloroplast envelope5.80E-11
5GO:0009570: chloroplast stroma1.08E-09
6GO:0009543: chloroplast thylakoid lumen9.05E-06
7GO:0030286: dynein complex4.83E-05
8GO:0009579: thylakoid6.98E-05
9GO:0042651: thylakoid membrane9.96E-05
10GO:0031969: chloroplast membrane1.18E-04
11GO:0031977: thylakoid lumen1.47E-04
12GO:0009782: photosystem I antenna complex2.68E-04
13GO:0009515: granal stacked thylakoid2.68E-04
14GO:0009523: photosystem II2.85E-04
15GO:0042644: chloroplast nucleoid3.80E-04
16GO:0009706: chloroplast inner membrane4.93E-04
17GO:0008290: F-actin capping protein complex5.89E-04
18GO:0031304: intrinsic component of mitochondrial inner membrane5.89E-04
19GO:0031415: NatA complex5.89E-04
20GO:0010287: plastoglobule6.41E-04
21GO:0009528: plastid inner membrane9.55E-04
22GO:0033281: TAT protein transport complex9.55E-04
23GO:0010007: magnesium chelatase complex9.55E-04
24GO:0009654: photosystem II oxygen evolving complex1.33E-03
25GO:0009330: DNA topoisomerase complex (ATP-hydrolyzing)1.83E-03
26GO:0009526: plastid envelope1.83E-03
27GO:0055035: plastid thylakoid membrane2.33E-03
28GO:0009295: nucleoid3.78E-03
29GO:0005778: peroxisomal membrane3.78E-03
30GO:0009533: chloroplast stromal thylakoid4.08E-03
31GO:0031359: integral component of chloroplast outer membrane4.08E-03
32GO:0005623: cell4.11E-03
33GO:0009539: photosystem II reaction center5.42E-03
34GO:0009707: chloroplast outer membrane5.54E-03
35GO:0009508: plastid chromosome1.02E-02
36GO:0005938: cell cortex1.02E-02
37GO:0030095: chloroplast photosystem II1.11E-02
38GO:0031966: mitochondrial membrane1.14E-02
39GO:0030076: light-harvesting complex1.21E-02
40GO:0043234: protein complex1.30E-02
41GO:0005875: microtubule associated complex1.30E-02
42GO:0005747: mitochondrial respiratory chain complex I1.50E-02
43GO:0045271: respiratory chain complex I1.50E-02
44GO:0016021: integral component of membrane1.75E-02
45GO:0015629: actin cytoskeleton1.82E-02
46GO:0019898: extrinsic component of membrane2.53E-02
47GO:0009705: plant-type vacuole membrane3.02E-02
48GO:0010319: stromule3.18E-02
49GO:0009536: plastid4.99E-02
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Gene type



Gene DE type