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

AT3G29230

GO-BP
GO-MF
GO-CC
RankGO TermAdjusted P value
1GO:0042820: vitamin B6 catabolic process0.00E+00
2GO:0097164: ammonium ion metabolic process0.00E+00
3GO:0006399: tRNA metabolic process0.00E+00
4GO:0018160: peptidyl-pyrromethane cofactor linkage0.00E+00
5GO:0070125: mitochondrial translational elongation0.00E+00
6GO:0032194: ubiquinone biosynthetic process via 3,4-dihydroxy-5-polyprenylbenzoate0.00E+00
7GO:0090071: negative regulation of ribosome biogenesis0.00E+00
8GO:0006223: uracil salvage0.00E+00
9GO:2000121: regulation of removal of superoxide radicals0.00E+00
10GO:0016553: base conversion or substitution editing0.00E+00
11GO:0042821: pyridoxal biosynthetic process0.00E+00
12GO:0042407: cristae formation0.00E+00
13GO:0070272: proton-transporting ATP synthase complex biogenesis0.00E+00
14GO:0006412: translation1.23E-14
15GO:0015995: chlorophyll biosynthetic process8.92E-12
16GO:0032544: plastid translation1.60E-11
17GO:0009658: chloroplast organization7.09E-11
18GO:0042254: ribosome biogenesis7.92E-11
19GO:0009735: response to cytokinin3.55E-08
20GO:0015979: photosynthesis1.04E-07
21GO:0006782: protoporphyrinogen IX biosynthetic process9.83E-07
22GO:1901259: chloroplast rRNA processing5.39E-06
23GO:0006353: DNA-templated transcription, termination1.29E-05
24GO:0090391: granum assembly2.10E-05
25GO:0006783: heme biosynthetic process2.54E-05
26GO:0010027: thylakoid membrane organization9.87E-05
27GO:0006655: phosphatidylglycerol biosynthetic process1.84E-04
28GO:0010190: cytochrome b6f complex assembly1.84E-04
29GO:0009772: photosynthetic electron transport in photosystem II3.23E-04
30GO:1904966: positive regulation of vitamin E biosynthetic process3.65E-04
31GO:1904964: positive regulation of phytol biosynthetic process3.65E-04
32GO:0042371: vitamin K biosynthetic process3.65E-04
33GO:0006436: tryptophanyl-tRNA aminoacylation3.65E-04
34GO:0034337: RNA folding3.65E-04
35GO:0048363: mucilage pectin metabolic process3.65E-04
36GO:0006434: seryl-tRNA aminoacylation3.65E-04
37GO:0009443: pyridoxal 5'-phosphate salvage3.65E-04
38GO:0006438: valyl-tRNA aminoacylation3.65E-04
39GO:0043489: RNA stabilization3.65E-04
40GO:0097056: selenocysteinyl-tRNA(Sec) biosynthetic process3.65E-04
41GO:0042255: ribosome assembly4.05E-04
42GO:0032502: developmental process6.14E-04
43GO:0006779: porphyrin-containing compound biosynthetic process7.02E-04
44GO:0006423: cysteinyl-tRNA aminoacylation7.94E-04
45GO:0071668: plant-type cell wall assembly7.94E-04
46GO:0080183: response to photooxidative stress7.94E-04
47GO:0006529: asparagine biosynthetic process7.94E-04
48GO:0008616: queuosine biosynthetic process7.94E-04
49GO:0006729: tetrahydrobiopterin biosynthetic process7.94E-04
50GO:0006568: tryptophan metabolic process7.94E-04
51GO:0043039: tRNA aminoacylation7.94E-04
52GO:1902326: positive regulation of chlorophyll biosynthetic process7.94E-04
53GO:0070981: L-asparagine biosynthetic process7.94E-04
54GO:0009773: photosynthetic electron transport in photosystem I9.42E-04
55GO:0016024: CDP-diacylglycerol biosynthetic process1.07E-03
56GO:0051604: protein maturation1.29E-03
57GO:0006617: SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition1.29E-03
58GO:0006760: folic acid-containing compound metabolic process1.29E-03
59GO:0006518: peptide metabolic process1.29E-03
60GO:0006228: UTP biosynthetic process1.85E-03
61GO:0080158: chloroplast ribulose bisphosphate carboxylase complex biogenesis1.85E-03
62GO:2001141: regulation of RNA biosynthetic process1.85E-03
63GO:0051085: chaperone mediated protein folding requiring cofactor1.85E-03
64GO:0006241: CTP biosynthetic process1.85E-03
65GO:0009052: pentose-phosphate shunt, non-oxidative branch1.85E-03
66GO:0006165: nucleoside diphosphate phosphorylation1.85E-03
67GO:0019344: cysteine biosynthetic process1.89E-03
68GO:0006633: fatty acid biosynthetic process1.97E-03
69GO:0006418: tRNA aminoacylation for protein translation2.09E-03
70GO:0006021: inositol biosynthetic process2.49E-03
71GO:0030007: cellular potassium ion homeostasis2.49E-03
72GO:0044206: UMP salvage2.49E-03
73GO:0006183: GTP biosynthetic process2.49E-03
74GO:0046656: folic acid biosynthetic process2.49E-03
75GO:0007005: mitochondrion organization2.51E-03
76GO:0010236: plastoquinone biosynthetic process3.18E-03
77GO:0043097: pyrimidine nucleoside salvage3.18E-03
78GO:0045038: protein import into chloroplast thylakoid membrane3.18E-03
79GO:0031365: N-terminal protein amino acid modification3.18E-03
80GO:0034052: positive regulation of plant-type hypersensitive response3.18E-03
81GO:0006206: pyrimidine nucleobase metabolic process3.93E-03
82GO:0032973: amino acid export3.93E-03
83GO:0009117: nucleotide metabolic process3.93E-03
84GO:0046855: inositol phosphate dephosphorylation3.93E-03
85GO:0017148: negative regulation of translation4.74E-03
86GO:0048280: vesicle fusion with Golgi apparatus4.74E-03
87GO:0046654: tetrahydrofolate biosynthetic process4.74E-03
88GO:0030488: tRNA methylation4.74E-03
89GO:0009854: oxidative photosynthetic carbon pathway4.74E-03
90GO:0010019: chloroplast-nucleus signaling pathway4.74E-03
91GO:0010555: response to mannitol4.74E-03
92GO:0009955: adaxial/abaxial pattern specification4.74E-03
93GO:0042372: phylloquinone biosynthetic process4.74E-03
94GO:0042026: protein refolding4.74E-03
95GO:0006400: tRNA modification5.60E-03
96GO:0006826: iron ion transport5.60E-03
97GO:0043090: amino acid import5.60E-03
98GO:0006614: SRP-dependent cotranslational protein targeting to membrane5.60E-03
99GO:0010196: nonphotochemical quenching5.60E-03
100GO:0009409: response to cold5.89E-03
101GO:0048564: photosystem I assembly6.51E-03
102GO:0009642: response to light intensity6.51E-03
103GO:0043068: positive regulation of programmed cell death6.51E-03
104GO:0009793: embryo development ending in seed dormancy7.17E-03
105GO:0017004: cytochrome complex assembly7.47E-03
106GO:0071482: cellular response to light stimulus7.47E-03
107GO:0009657: plastid organization7.47E-03
108GO:0009627: systemic acquired resistance7.51E-03
109GO:0045454: cell redox homeostasis8.08E-03
110GO:0009245: lipid A biosynthetic process8.47E-03
111GO:0080144: amino acid homeostasis8.47E-03
112GO:0034765: regulation of ion transmembrane transport8.47E-03
113GO:0009790: embryo development8.69E-03
114GO:0048481: plant ovule development8.79E-03
115GO:0042742: defense response to bacterium9.23E-03
116GO:0031425: chloroplast RNA processing9.53E-03
117GO:0043067: regulation of programmed cell death9.53E-03
118GO:0048354: mucilage biosynthetic process involved in seed coat development9.53E-03
119GO:0045036: protein targeting to chloroplast1.06E-02
120GO:0006896: Golgi to vacuole transport1.06E-02
121GO:0006535: cysteine biosynthetic process from serine1.06E-02
122GO:0006415: translational termination1.18E-02
123GO:0006352: DNA-templated transcription, initiation1.18E-02
124GO:0016485: protein processing1.18E-02
125GO:0009089: lysine biosynthetic process via diaminopimelate1.18E-02
126GO:0009073: aromatic amino acid family biosynthetic process1.18E-02
127GO:0043085: positive regulation of catalytic activity1.18E-02
128GO:0006457: protein folding1.25E-02
129GO:0045037: protein import into chloroplast stroma1.30E-02
130GO:0006790: sulfur compound metabolic process1.30E-02
131GO:0008380: RNA splicing1.35E-02
132GO:0006508: proteolysis1.38E-02
133GO:0010628: positive regulation of gene expression1.42E-02
134GO:0006541: glutamine metabolic process1.55E-02
135GO:0010207: photosystem II assembly1.55E-02
136GO:0010020: chloroplast fission1.55E-02
137GO:0010039: response to iron ion1.68E-02
138GO:0046854: phosphatidylinositol phosphorylation1.68E-02
139GO:0010167: response to nitrate1.68E-02
140GO:0019853: L-ascorbic acid biosynthetic process1.68E-02
141GO:0006636: unsaturated fatty acid biosynthetic process1.81E-02
142GO:0042538: hyperosmotic salinity response1.81E-02
143GO:0009116: nucleoside metabolic process1.95E-02
144GO:0000027: ribosomal large subunit assembly1.95E-02
145GO:0007017: microtubule-based process2.09E-02
146GO:0051260: protein homooligomerization2.24E-02
147GO:0061077: chaperone-mediated protein folding2.24E-02
148GO:0009814: defense response, incompatible interaction2.38E-02
149GO:0016226: iron-sulfur cluster assembly2.38E-02
150GO:0080167: response to karrikin2.46E-02
151GO:0009411: response to UV2.54E-02
152GO:0016117: carotenoid biosynthetic process2.85E-02
153GO:0042147: retrograde transport, endosome to Golgi2.85E-02
154GO:0042335: cuticle development3.01E-02
155GO:0000271: polysaccharide biosynthetic process3.01E-02
156GO:0008033: tRNA processing3.01E-02
157GO:0000413: protein peptidyl-prolyl isomerization3.01E-02
158GO:0006662: glycerol ether metabolic process3.18E-02
159GO:0010197: polar nucleus fusion3.18E-02
160GO:0009741: response to brassinosteroid3.18E-02
161GO:0045489: pectin biosynthetic process3.18E-02
162GO:0015986: ATP synthesis coupled proton transport3.35E-02
163GO:0009646: response to absence of light3.35E-02
164GO:0008654: phospholipid biosynthetic process3.52E-02
165GO:0006623: protein targeting to vacuole3.52E-02
166GO:0006891: intra-Golgi vesicle-mediated transport3.69E-02
167GO:0007264: small GTPase mediated signal transduction3.87E-02
168GO:1901657: glycosyl compound metabolic process4.05E-02
169GO:0006397: mRNA processing4.20E-02
170GO:0009567: double fertilization forming a zygote and endosperm4.23E-02
171GO:0010286: heat acclimation4.42E-02
172GO:0071805: potassium ion transmembrane transport4.42E-02
173GO:0006413: translational initiation4.46E-02
174GO:0000910: cytokinesis4.61E-02
175GO:0010029: regulation of seed germination4.99E-02
RankGO TermAdjusted P value
1GO:0004853: uroporphyrinogen decarboxylase activity0.00E+00
2GO:0050421: nitrite reductase (NO-forming) activity0.00E+00
3GO:0004418: hydroxymethylbilane synthase activity0.00E+00
4GO:0004314: [acyl-carrier-protein] S-malonyltransferase activity0.00E+00
5GO:0015038: glutathione disulfide oxidoreductase activity0.00E+00
6GO:0046408: chlorophyll synthetase activity0.00E+00
7GO:0005048: signal sequence binding0.00E+00
8GO:0047889: ferredoxin-nitrate reductase activity0.00E+00
9GO:0009974: zeinoxanthin epsilon hydroxylase activity0.00E+00
10GO:0033728: divinyl chlorophyllide a 8-vinyl-reductase activity0.00E+00
11GO:0050236: pyridoxine:NADP 4-dehydrogenase activity0.00E+00
12GO:0015269: calcium-activated potassium channel activity0.00E+00
13GO:0008887: glycerate kinase activity0.00E+00
14GO:0048307: ferredoxin-nitrite reductase activity0.00E+00
15GO:0000979: RNA polymerase II core promoter sequence-specific DNA binding0.00E+00
16GO:0051744: 3,8-divinyl protochlorophyllide a 8-vinyl reductase activity0.00E+00
17GO:0046428: 1,4-dihydroxy-2-naphthoate octaprenyltransferase activity0.00E+00
18GO:0019843: rRNA binding6.29E-19
19GO:0003735: structural constituent of ribosome1.58E-16
20GO:0070402: NADPH binding2.10E-05
21GO:0016851: magnesium chelatase activity4.63E-05
22GO:0008124: 4-alpha-hydroxytetrahydrobiopterin dehydratase activity3.65E-04
23GO:0004832: valine-tRNA ligase activity3.65E-04
24GO:0004830: tryptophan-tRNA ligase activity3.65E-04
25GO:0010347: L-galactose-1-phosphate phosphatase activity3.65E-04
26GO:0042286: glutamate-1-semialdehyde 2,1-aminomutase activity3.65E-04
27GO:0030794: (S)-coclaurine-N-methyltransferase activity3.65E-04
28GO:0004425: indole-3-glycerol-phosphate synthase activity3.65E-04
29GO:0050567: glutaminyl-tRNA synthase (glutamine-hydrolyzing) activity3.65E-04
30GO:0004828: serine-tRNA ligase activity3.65E-04
31GO:0009374: biotin binding3.65E-04
32GO:0004071: aspartate-ammonia ligase activity3.65E-04
33GO:0003755: peptidyl-prolyl cis-trans isomerase activity4.63E-04
34GO:0008237: metallopeptidase activity7.77E-04
35GO:0004066: asparagine synthase (glutamine-hydrolyzing) activity7.94E-04
36GO:0042389: omega-3 fatty acid desaturase activity7.94E-04
37GO:0102083: 7,8-dihydromonapterin aldolase activity7.94E-04
38GO:0052832: inositol monophosphate 3-phosphatase activity7.94E-04
39GO:0004817: cysteine-tRNA ligase activity7.94E-04
40GO:0008479: queuine tRNA-ribosyltransferase activity7.94E-04
41GO:0000774: adenyl-nucleotide exchange factor activity7.94E-04
42GO:0016630: protochlorophyllide reductase activity7.94E-04
43GO:0008934: inositol monophosphate 1-phosphatase activity7.94E-04
44GO:0004150: dihydroneopterin aldolase activity7.94E-04
45GO:0052833: inositol monophosphate 4-phosphatase activity7.94E-04
46GO:0008839: 4-hydroxy-tetrahydrodipicolinate reductase7.94E-04
47GO:0003729: mRNA binding8.66E-04
48GO:0003723: RNA binding1.08E-03
49GO:0004751: ribose-5-phosphate isomerase activity1.29E-03
50GO:0004148: dihydrolipoyl dehydrogenase activity1.29E-03
51GO:0004222: metalloendopeptidase activity1.42E-03
52GO:0004550: nucleoside diphosphate kinase activity1.85E-03
53GO:0043023: ribosomal large subunit binding1.85E-03
54GO:0008097: 5S rRNA binding1.85E-03
55GO:0035529: NADH pyrophosphatase activity1.85E-03
56GO:0016149: translation release factor activity, codon specific1.85E-03
57GO:0051536: iron-sulfur cluster binding1.89E-03
58GO:0005528: FK506 binding1.89E-03
59GO:0043495: protein anchor2.49E-03
60GO:0003841: 1-acylglycerol-3-phosphate O-acyltransferase activity2.49E-03
61GO:0004659: prenyltransferase activity2.49E-03
62GO:0001053: plastid sigma factor activity2.49E-03
63GO:0004845: uracil phosphoribosyltransferase activity2.49E-03
64GO:0004045: aminoacyl-tRNA hydrolase activity2.49E-03
65GO:0016987: sigma factor activity2.49E-03
66GO:0003727: single-stranded RNA binding2.98E-03
67GO:0004040: amidase activity3.18E-03
68GO:0003989: acetyl-CoA carboxylase activity3.18E-03
69GO:0003959: NADPH dehydrogenase activity3.18E-03
70GO:0030414: peptidase inhibitor activity3.18E-03
71GO:0004812: aminoacyl-tRNA ligase activity3.23E-03
72GO:0016462: pyrophosphatase activity3.93E-03
73GO:0015271: outward rectifier potassium channel activity3.93E-03
74GO:0004605: phosphatidate cytidylyltransferase activity3.93E-03
75GO:0031177: phosphopantetheine binding3.93E-03
76GO:0004124: cysteine synthase activity4.74E-03
77GO:0051920: peroxiredoxin activity4.74E-03
78GO:0008441: 3'(2'),5'-bisphosphate nucleotidase activity4.74E-03
79GO:0004849: uridine kinase activity4.74E-03
80GO:0000035: acyl binding4.74E-03
81GO:0051082: unfolded protein binding5.36E-03
82GO:0008235: metalloexopeptidase activity5.60E-03
83GO:0019899: enzyme binding5.60E-03
84GO:0005525: GTP binding6.15E-03
85GO:0004033: aldo-keto reductase (NADP) activity6.51E-03
86GO:0016209: antioxidant activity6.51E-03
87GO:0008312: 7S RNA binding6.51E-03
88GO:0000036: ACP phosphopantetheine attachment site binding involved in fatty acid biosynthetic process6.51E-03
89GO:0016717: oxidoreductase activity, acting on paired donors, with oxidation of a pair of donors resulting in the reduction of molecular oxygen to two molecules of water7.47E-03
90GO:0005267: potassium channel activity7.47E-03
91GO:0003747: translation release factor activity8.47E-03
92GO:0008047: enzyme activator activity1.06E-02
93GO:0003924: GTPase activity1.11E-02
94GO:0003746: translation elongation factor activity1.12E-02
95GO:0004177: aminopeptidase activity1.18E-02
96GO:0044183: protein binding involved in protein folding1.18E-02
97GO:0051539: 4 iron, 4 sulfur cluster binding1.27E-02
98GO:0031072: heat shock protein binding1.42E-02
99GO:0042802: identical protein binding1.46E-02
100GO:0008266: poly(U) RNA binding1.55E-02
101GO:0016491: oxidoreductase activity1.57E-02
102GO:0003690: double-stranded DNA binding2.02E-02
103GO:0051087: chaperone binding2.09E-02
104GO:0005216: ion channel activity2.09E-02
105GO:0004176: ATP-dependent peptidase activity2.24E-02
106GO:0047262: polygalacturonate 4-alpha-galacturonosyltransferase activity2.38E-02
107GO:0022891: substrate-specific transmembrane transporter activity2.54E-02
108GO:0047134: protein-disulfide reductase activity2.85E-02
109GO:0015035: protein disulfide oxidoreductase activity2.86E-02
110GO:0046933: proton-transporting ATP synthase activity, rotational mechanism3.18E-02
111GO:0042803: protein homodimerization activity3.26E-02
112GO:0010181: FMN binding3.35E-02
113GO:0004791: thioredoxin-disulfide reductase activity3.35E-02
114GO:0016758: transferase activity, transferring hexosyl groups3.38E-02
115GO:0030170: pyridoxal phosphate binding3.85E-02
116GO:0016671: oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor4.05E-02
117GO:0008565: protein transporter activity4.15E-02
118GO:0005200: structural constituent of cytoskeleton4.42E-02
119GO:0008483: transaminase activity4.42E-02
120GO:0016168: chlorophyll binding4.99E-02
RankGO TermAdjusted P value
1GO:0044391: ribosomal subunit0.00E+00
2GO:0009507: chloroplast2.00E-100
3GO:0009570: chloroplast stroma7.13E-72
4GO:0009941: chloroplast envelope4.02E-51
5GO:0009535: chloroplast thylakoid membrane3.68E-32
6GO:0009579: thylakoid1.48E-29
7GO:0005840: ribosome6.35E-21
8GO:0009543: chloroplast thylakoid lumen2.55E-14
9GO:0031977: thylakoid lumen3.06E-12
10GO:0009534: chloroplast thylakoid1.45E-10
11GO:0009536: plastid1.46E-07
12GO:0009654: photosystem II oxygen evolving complex2.37E-07
13GO:0000311: plastid large ribosomal subunit1.94E-06
14GO:0019898: extrinsic component of membrane4.28E-05
15GO:0031969: chloroplast membrane5.81E-05
16GO:0042651: thylakoid membrane1.92E-04
17GO:0015934: large ribosomal subunit2.05E-04
18GO:0009515: granal stacked thylakoid3.65E-04
19GO:0030956: glutamyl-tRNA(Gln) amidotransferase complex3.65E-04
20GO:0009295: nucleoid7.77E-04
21GO:0042170: plastid membrane7.94E-04
22GO:0080085: signal recognition particle, chloroplast targeting7.94E-04
23GO:0030529: intracellular ribonucleoprotein complex8.99E-04
24GO:0009706: chloroplast inner membrane9.90E-04
25GO:0009508: plastid chromosome1.22E-03
26GO:0009509: chromoplast1.29E-03
27GO:0009317: acetyl-CoA carboxylase complex1.29E-03
28GO:0010007: magnesium chelatase complex1.29E-03
29GO:0042646: plastid nucleoid1.85E-03
30GO:0015935: small ribosomal subunit2.30E-03
31GO:0009526: plastid envelope2.49E-03
32GO:0055035: plastid thylakoid membrane3.18E-03
33GO:0045261: proton-transporting ATP synthase complex, catalytic core F(1)3.93E-03
34GO:0016363: nuclear matrix4.74E-03
35GO:0009533: chloroplast stromal thylakoid5.60E-03
36GO:0010319: stromule5.99E-03
37GO:0012507: ER to Golgi transport vesicle membrane6.51E-03
38GO:0005786: signal recognition particle, endoplasmic reticulum targeting7.47E-03
39GO:0009539: photosystem II reaction center7.47E-03
40GO:0045298: tubulin complex8.47E-03
41GO:0005763: mitochondrial small ribosomal subunit8.47E-03
42GO:0009707: chloroplast outer membrane8.79E-03
43GO:0005759: mitochondrial matrix9.55E-03
44GO:0032040: small-subunit processome1.30E-02
45GO:0030095: chloroplast photosystem II1.55E-02
46GO:0048046: apoplast2.02E-02
47GO:0009532: plastid stroma2.24E-02
48GO:0022626: cytosolic ribosome2.46E-02
49GO:0010287: plastoglobule3.29E-02
50GO:0009523: photosystem II3.52E-02
51GO:0009504: cell plate3.52E-02
52GO:0005623: cell3.57E-02
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Gene type



Gene DE type