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

AT3G63490

GO-BP
GO-MF
GO-CC
RankGO TermAdjusted P value
1GO:0016553: base conversion or substitution editing0.00E+00
2GO:0061635: regulation of protein complex stability0.00E+00
3GO:0035970: peptidyl-threonine dephosphorylation0.00E+00
4GO:0070272: proton-transporting ATP synthase complex biogenesis0.00E+00
5GO:0099131: ATP hydrolysis coupled ion transmembrane transport0.00E+00
6GO:1904966: positive regulation of vitamin E biosynthetic process0.00E+00
7GO:0090042: tubulin deacetylation0.00E+00
8GO:1904964: positive regulation of phytol biosynthetic process0.00E+00
9GO:0006399: tRNA metabolic process0.00E+00
10GO:0034337: RNA folding0.00E+00
11GO:0006429: leucyl-tRNA aminoacylation0.00E+00
12GO:0002184: cytoplasmic translational termination0.00E+00
13GO:0070681: glutaminyl-tRNAGln biosynthesis via transamidation0.00E+00
14GO:0015979: photosynthesis1.00E-16
15GO:0009773: photosynthetic electron transport in photosystem I1.61E-10
16GO:0032544: plastid translation1.90E-09
17GO:0010027: thylakoid membrane organization5.00E-09
18GO:1902326: positive regulation of chlorophyll biosynthetic process5.29E-06
19GO:0030388: fructose 1,6-bisphosphate metabolic process5.29E-06
20GO:0010196: nonphotochemical quenching7.28E-06
21GO:0018298: protein-chromophore linkage9.39E-06
22GO:0071482: cellular response to light stimulus1.57E-05
23GO:0006000: fructose metabolic process1.87E-05
24GO:0043085: positive regulation of catalytic activity4.80E-05
25GO:0006094: gluconeogenesis7.32E-05
26GO:0009735: response to cytokinin9.36E-05
27GO:0015995: chlorophyll biosynthetic process1.12E-04
28GO:0032543: mitochondrial translation1.15E-04
29GO:0031365: N-terminal protein amino acid modification1.15E-04
30GO:0006412: translation1.70E-04
31GO:0042254: ribosome biogenesis1.74E-04
32GO:0043489: RNA stabilization3.42E-04
33GO:0043953: protein transport by the Tat complex3.42E-04
34GO:0000481: maturation of 5S rRNA3.42E-04
35GO:0065002: intracellular protein transmembrane transport3.42E-04
36GO:0043686: co-translational protein modification3.42E-04
37GO:0071588: hydrogen peroxide mediated signaling pathway3.42E-04
38GO:0008610: lipid biosynthetic process3.67E-04
39GO:0009657: plastid organization4.51E-04
40GO:0006002: fructose 6-phosphate metabolic process4.51E-04
41GO:0019430: removal of superoxide radicals4.51E-04
42GO:0080005: photosystem stoichiometry adjustment7.45E-04
43GO:1900871: chloroplast mRNA modification7.45E-04
44GO:0034755: iron ion transmembrane transport7.45E-04
45GO:0071457: cellular response to ozone7.45E-04
46GO:0009662: etioplast organization7.45E-04
47GO:0010275: NAD(P)H dehydrogenase complex assembly7.45E-04
48GO:0009658: chloroplast organization8.48E-04
49GO:0006352: DNA-templated transcription, initiation8.59E-04
50GO:0009767: photosynthetic electron transport chain1.11E-03
51GO:0005986: sucrose biosynthetic process1.11E-03
52GO:0006954: inflammatory response1.21E-03
53GO:0090391: granum assembly1.21E-03
54GO:0006518: peptide metabolic process1.21E-03
55GO:0010581: regulation of starch biosynthetic process1.21E-03
56GO:0006617: SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition1.21E-03
57GO:0051604: protein maturation1.21E-03
58GO:0030865: cortical cytoskeleton organization1.21E-03
59GO:0000913: preprophase band assembly1.21E-03
60GO:1902448: positive regulation of shade avoidance1.21E-03
61GO:0034599: cellular response to oxidative stress1.58E-03
62GO:0045454: cell redox homeostasis1.69E-03
63GO:0006424: glutamyl-tRNA aminoacylation1.74E-03
64GO:0055070: copper ion homeostasis1.74E-03
65GO:2001141: regulation of RNA biosynthetic process1.74E-03
66GO:0010258: NADH dehydrogenase complex (plastoquinone) assembly1.74E-03
67GO:0071484: cellular response to light intensity1.74E-03
68GO:0009152: purine ribonucleotide biosynthetic process1.74E-03
69GO:0046653: tetrahydrofolate metabolic process1.74E-03
70GO:0009052: pentose-phosphate shunt, non-oxidative branch1.74E-03
71GO:0009768: photosynthesis, light harvesting in photosystem I1.90E-03
72GO:0009451: RNA modification2.03E-03
73GO:0031408: oxylipin biosynthetic process2.09E-03
74GO:0006546: glycine catabolic process2.33E-03
75GO:0071483: cellular response to blue light2.33E-03
76GO:0006808: regulation of nitrogen utilization2.33E-03
77GO:0071486: cellular response to high light intensity2.33E-03
78GO:0009765: photosynthesis, light harvesting2.33E-03
79GO:0006109: regulation of carbohydrate metabolic process2.33E-03
80GO:0045727: positive regulation of translation2.33E-03
81GO:0015994: chlorophyll metabolic process2.33E-03
82GO:0008152: metabolic process2.91E-03
83GO:0071493: cellular response to UV-B2.98E-03
84GO:0006564: L-serine biosynthetic process2.98E-03
85GO:0045038: protein import into chloroplast thylakoid membrane2.98E-03
86GO:0035434: copper ion transmembrane transport2.98E-03
87GO:0006461: protein complex assembly2.98E-03
88GO:0009107: lipoate biosynthetic process2.98E-03
89GO:0000304: response to singlet oxygen2.98E-03
90GO:0042335: cuticle development3.17E-03
91GO:0006662: glycerol ether metabolic process3.41E-03
92GO:0016554: cytidine to uridine editing3.68E-03
93GO:0010190: cytochrome b6f complex assembly3.68E-03
94GO:0006086: acetyl-CoA biosynthetic process from pyruvate3.68E-03
95GO:0042549: photosystem II stabilization3.68E-03
96GO:0009913: epidermal cell differentiation3.68E-03
97GO:0006655: phosphatidylglycerol biosynthetic process3.68E-03
98GO:0000462: maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)4.43E-03
99GO:1901259: chloroplast rRNA processing4.43E-03
100GO:0009854: oxidative photosynthetic carbon pathway4.43E-03
101GO:0010019: chloroplast-nucleus signaling pathway4.43E-03
102GO:0009409: response to cold4.75E-03
103GO:0006614: SRP-dependent cotranslational protein targeting to membrane5.23E-03
104GO:0009645: response to low light intensity stimulus5.23E-03
105GO:0006400: tRNA modification5.23E-03
106GO:0009642: response to light intensity6.08E-03
107GO:0006605: protein targeting6.08E-03
108GO:0032508: DNA duplex unwinding6.08E-03
109GO:0006098: pentose-phosphate shunt7.91E-03
110GO:0010206: photosystem II repair7.91E-03
111GO:0009051: pentose-phosphate shunt, oxidative branch7.91E-03
112GO:1900865: chloroplast RNA modification8.89E-03
113GO:0010380: regulation of chlorophyll biosynthetic process8.89E-03
114GO:0010205: photoinhibition8.89E-03
115GO:0009631: cold acclimation9.22E-03
116GO:0006535: cysteine biosynthetic process from serine9.92E-03
117GO:0048829: root cap development9.92E-03
118GO:0009637: response to blue light1.01E-02
119GO:0009853: photorespiration1.01E-02
120GO:0006457: protein folding1.05E-02
121GO:0055114: oxidation-reduction process1.10E-02
122GO:0009073: aromatic amino acid family biosynthetic process1.10E-02
123GO:1903507: negative regulation of nucleic acid-templated transcription1.10E-02
124GO:0006879: cellular iron ion homeostasis1.10E-02
125GO:0006415: translational termination1.10E-02
126GO:0009750: response to fructose1.10E-02
127GO:0000038: very long-chain fatty acid metabolic process1.10E-02
128GO:0030001: metal ion transport1.15E-02
129GO:0005983: starch catabolic process1.21E-02
130GO:0016024: CDP-diacylglycerol biosynthetic process1.21E-02
131GO:0010114: response to red light1.31E-02
132GO:0010628: positive regulation of gene expression1.32E-02
133GO:0006006: glucose metabolic process1.32E-02
134GO:0009718: anthocyanin-containing compound biosynthetic process1.32E-02
135GO:0009644: response to high light intensity1.41E-02
136GO:0010207: photosystem II assembly1.44E-02
137GO:0019253: reductive pentose-phosphate cycle1.44E-02
138GO:0010143: cutin biosynthetic process1.44E-02
139GO:0006855: drug transmembrane transport1.53E-02
140GO:0005985: sucrose metabolic process1.56E-02
141GO:0090351: seedling development1.56E-02
142GO:0006810: transport1.60E-02
143GO:0010025: wax biosynthetic process1.69E-02
144GO:0006636: unsaturated fatty acid biosynthetic process1.69E-02
145GO:0006364: rRNA processing1.77E-02
146GO:0000027: ribosomal large subunit assembly1.82E-02
147GO:0019344: cysteine biosynthetic process1.82E-02
148GO:0006418: tRNA aminoacylation for protein translation1.95E-02
149GO:0009695: jasmonic acid biosynthetic process1.95E-02
150GO:0016575: histone deacetylation1.95E-02
151GO:0003333: amino acid transmembrane transport2.08E-02
152GO:0061077: chaperone-mediated protein folding2.08E-02
153GO:0006096: glycolytic process2.09E-02
154GO:0016226: iron-sulfur cluster assembly2.22E-02
155GO:2000022: regulation of jasmonic acid mediated signaling pathway2.22E-02
156GO:0035428: hexose transmembrane transport2.22E-02
157GO:0009416: response to light stimulus2.27E-02
158GO:0009561: megagametogenesis2.51E-02
159GO:0009306: protein secretion2.51E-02
160GO:0016117: carotenoid biosynthetic process2.66E-02
161GO:0000226: microtubule cytoskeleton organization2.81E-02
162GO:0000413: protein peptidyl-prolyl isomerization2.81E-02
163GO:0071472: cellular response to salt stress2.96E-02
164GO:0046323: glucose import2.96E-02
165GO:0006869: lipid transport3.06E-02
166GO:0008654: phospholipid biosynthetic process3.28E-02
167GO:0000302: response to reactive oxygen species3.44E-02
168GO:0042744: hydrogen peroxide catabolic process3.58E-02
169GO:0016032: viral process3.61E-02
170GO:0009793: embryo development ending in seed dormancy3.74E-02
171GO:0030163: protein catabolic process3.78E-02
172GO:0009567: double fertilization forming a zygote and endosperm3.95E-02
173GO:0006633: fatty acid biosynthetic process3.95E-02
174GO:0071805: potassium ion transmembrane transport4.12E-02
175GO:0001666: response to hypoxia4.47E-02
RankGO TermAdjusted P value
1GO:0008887: glycerate kinase activity0.00E+00
2GO:0051721: protein phosphatase 2A binding0.00E+00
3GO:0047538: 2-carboxy-D-arabinitol-1-phosphatase activity0.00E+00
4GO:0042903: tubulin deacetylase activity0.00E+00
5GO:0043014: alpha-tubulin binding0.00E+00
6GO:0004823: leucine-tRNA ligase activity0.00E+00
7GO:0102193: protein-ribulosamine 3-kinase activity0.00E+00
8GO:0005048: signal sequence binding0.00E+00
9GO:0046608: carotenoid isomerase activity0.00E+00
10GO:0019843: rRNA binding1.13E-11
11GO:0003755: peptidyl-prolyl cis-trans isomerase activity1.52E-07
12GO:0042132: fructose 1,6-bisphosphate 1-phosphatase activity5.29E-06
13GO:0016168: chlorophyll binding5.46E-06
14GO:0005528: FK506 binding6.00E-06
15GO:0008047: enzyme activator activity3.77E-05
16GO:0043495: protein anchor7.33E-05
17GO:0001053: plastid sigma factor activity7.33E-05
18GO:0016987: sigma factor activity7.33E-05
19GO:0008266: poly(U) RNA binding8.85E-05
20GO:0003735: structural constituent of ribosome1.50E-04
21GO:0022891: substrate-specific transmembrane transporter activity2.47E-04
22GO:0019899: enzyme binding2.93E-04
23GO:0009496: plastoquinol--plastocyanin reductase activity3.42E-04
24GO:0046028: electron transporter, transferring electrons from cytochrome b6/f complex of photosystem II activity3.42E-04
25GO:0004321: fatty-acyl-CoA synthase activity3.42E-04
26GO:0005080: protein kinase C binding3.42E-04
27GO:0042586: peptide deformylase activity3.42E-04
28GO:0045485: omega-6 fatty acid desaturase activity3.42E-04
29GO:0050139: nicotinate-N-glucosyltransferase activity3.42E-04
30GO:0050567: glutaminyl-tRNA synthase (glutamine-hydrolyzing) activity3.42E-04
31GO:0004791: thioredoxin-disulfide reductase activity4.17E-04
32GO:0016671: oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor5.89E-04
33GO:0000774: adenyl-nucleotide exchange factor activity7.45E-04
34GO:0016630: protochlorophyllide reductase activity7.45E-04
35GO:0050017: L-3-cyanoalanine synthase activity7.45E-04
36GO:0047746: chlorophyllase activity7.45E-04
37GO:0009977: proton motive force dependent protein transmembrane transporter activity7.45E-04
38GO:0004617: phosphoglycerate dehydrogenase activity7.45E-04
39GO:0004565: beta-galactosidase activity1.11E-03
40GO:0031072: heat shock protein binding1.11E-03
41GO:0019829: cation-transporting ATPase activity1.21E-03
42GO:0017150: tRNA dihydrouridine synthase activity1.21E-03
43GO:0016992: lipoate synthase activity1.21E-03
44GO:0002161: aminoacyl-tRNA editing activity1.21E-03
45GO:0004751: ribose-5-phosphate isomerase activity1.21E-03
46GO:0016742: hydroxymethyl-, formyl- and related transferase activity1.21E-03
47GO:0008864: formyltetrahydrofolate deformylase activity1.21E-03
48GO:0016531: copper chaperone activity1.21E-03
49GO:0045158: electron transporter, transferring electrons within cytochrome b6/f complex of photosystem II activity1.21E-03
50GO:0031409: pigment binding1.55E-03
51GO:0016787: hydrolase activity1.71E-03
52GO:0048487: beta-tubulin binding1.74E-03
53GO:0016149: translation release factor activity, codon specific1.74E-03
54GO:0016851: magnesium chelatase activity1.74E-03
55GO:0043023: ribosomal large subunit binding1.74E-03
56GO:0003723: RNA binding1.79E-03
57GO:0015079: potassium ion transmembrane transporter activity1.90E-03
58GO:0010328: auxin influx transmembrane transporter activity2.33E-03
59GO:0003841: 1-acylglycerol-3-phosphate O-acyltransferase activity2.33E-03
60GO:0004345: glucose-6-phosphate dehydrogenase activity2.33E-03
61GO:0016655: oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor2.33E-03
62GO:0004739: pyruvate dehydrogenase (acetyl-transferring) activity2.33E-03
63GO:0004045: aminoacyl-tRNA hydrolase activity2.33E-03
64GO:0047134: protein-disulfide reductase activity2.93E-03
65GO:0003959: NADPH dehydrogenase activity2.98E-03
66GO:0004130: cytochrome-c peroxidase activity3.68E-03
67GO:0004784: superoxide dismutase activity3.68E-03
68GO:0016688: L-ascorbate peroxidase activity3.68E-03
69GO:0090447: glycerol-3-phosphate 2-O-acyltransferase activity3.68E-03
70GO:0004332: fructose-bisphosphate aldolase activity3.68E-03
71GO:0004124: cysteine synthase activity4.43E-03
72GO:0051082: unfolded protein binding4.73E-03
73GO:0016746: transferase activity, transferring acyl groups4.91E-03
74GO:0004620: phospholipase activity5.23E-03
75GO:0008235: metalloexopeptidase activity5.23E-03
76GO:0003729: mRNA binding5.83E-03
77GO:0043022: ribosome binding6.08E-03
78GO:0004033: aldo-keto reductase (NADP) activity6.08E-03
79GO:0008312: 7S RNA binding6.08E-03
80GO:0005509: calcium ion binding6.50E-03
81GO:0005375: copper ion transmembrane transporter activity6.98E-03
82GO:0032041: NAD-dependent histone deacetylase activity (H3-K14 specific)6.98E-03
83GO:0008236: serine-type peptidase activity7.57E-03
84GO:0003747: translation release factor activity7.91E-03
85GO:0016207: 4-coumarate-CoA ligase activity7.91E-03
86GO:0015238: drug transmembrane transporter activity8.37E-03
87GO:0005381: iron ion transmembrane transporter activity8.89E-03
88GO:0015386: potassium:proton antiporter activity1.10E-02
89GO:0004177: aminopeptidase activity1.10E-02
90GO:0046872: metal ion binding1.15E-02
91GO:0016491: oxidoreductase activity1.30E-02
92GO:0004022: alcohol dehydrogenase (NAD) activity1.32E-02
93GO:0015662: ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism1.32E-02
94GO:0009982: pseudouridine synthase activity1.32E-02
95GO:0102337: 3-oxo-cerotoyl-CoA synthase activity1.69E-02
96GO:0102338: 3-oxo-lignoceronyl-CoA synthase activity1.69E-02
97GO:0102336: 3-oxo-arachidoyl-CoA synthase activity1.69E-02
98GO:0003899: DNA-directed 5'-3' RNA polymerase activity1.77E-02
99GO:0003714: transcription corepressor activity1.82E-02
100GO:0051536: iron-sulfur cluster binding1.82E-02
101GO:0004857: enzyme inhibitor activity1.82E-02
102GO:0004407: histone deacetylase activity1.82E-02
103GO:0051087: chaperone binding1.95E-02
104GO:0043424: protein histidine kinase binding1.95E-02
105GO:0004176: ATP-dependent peptidase activity2.08E-02
106GO:0015035: protein disulfide oxidoreductase activity2.59E-02
107GO:0004812: aminoacyl-tRNA ligase activity2.66E-02
108GO:0005215: transporter activity2.68E-02
109GO:0005355: glucose transmembrane transporter activity3.12E-02
110GO:0050662: coenzyme binding3.12E-02
111GO:0010181: FMN binding3.12E-02
112GO:0048038: quinone binding3.44E-02
113GO:0004519: endonuclease activity3.92E-02
114GO:0016791: phosphatase activity3.95E-02
115GO:0015297: antiporter activity4.14E-02
116GO:0016597: amino acid binding4.30E-02
117GO:0005525: GTP binding4.67E-02
RankGO TermAdjusted P value
1GO:0043235: receptor complex0.00E+00
2GO:0009507: chloroplast8.69E-83
3GO:0009570: chloroplast stroma7.98E-41
4GO:0009535: chloroplast thylakoid membrane6.25E-37
5GO:0009941: chloroplast envelope3.00E-34
6GO:0009579: thylakoid1.52E-24
7GO:0009543: chloroplast thylakoid lumen1.48E-22
8GO:0009534: chloroplast thylakoid3.44E-19
9GO:0031977: thylakoid lumen1.86E-12
10GO:0009654: photosystem II oxygen evolving complex3.22E-09
11GO:0019898: extrinsic component of membrane4.06E-08
12GO:0010598: NAD(P)H dehydrogenase complex (plastoquinone)3.51E-07
13GO:0031969: chloroplast membrane4.55E-07
14GO:0005840: ribosome1.85E-06
15GO:0009533: chloroplast stromal thylakoid7.28E-06
16GO:0042651: thylakoid membrane7.49E-06
17GO:0009523: photosystem II3.54E-05
18GO:0030956: glutamyl-tRNA(Gln) amidotransferase complex3.42E-04
19GO:0009515: granal stacked thylakoid3.42E-04
20GO:0009547: plastid ribosome3.42E-04
21GO:0031361: integral component of thylakoid membrane3.42E-04
22GO:0009782: photosystem I antenna complex3.42E-04
23GO:0080085: signal recognition particle, chloroplast targeting7.45E-04
24GO:0030981: cortical microtubule cytoskeleton7.45E-04
25GO:0032040: small-subunit processome9.79E-04
26GO:0010287: plastoglobule1.10E-03
27GO:0033281: TAT protein transport complex1.21E-03
28GO:0010007: magnesium chelatase complex1.21E-03
29GO:0000312: plastid small ribosomal subunit1.25E-03
30GO:0030095: chloroplast photosystem II1.25E-03
31GO:0030076: light-harvesting complex1.39E-03
32GO:0016020: membrane1.41E-03
33GO:0009526: plastid envelope2.33E-03
34GO:0055035: plastid thylakoid membrane2.98E-03
35GO:0009512: cytochrome b6f complex2.98E-03
36GO:0009536: plastid3.84E-03
37GO:0009295: nucleoid5.43E-03
38GO:0030529: intracellular ribonucleoprotein complex6.10E-03
39GO:0005786: signal recognition particle, endoplasmic reticulum targeting6.98E-03
40GO:0015934: large ribosomal subunit9.22E-03
41GO:0000311: plastid large ribosomal subunit1.21E-02
42GO:0009508: plastid chromosome1.32E-02
43GO:0043234: protein complex1.69E-02
44GO:0015935: small ribosomal subunit2.08E-02
45GO:0009706: chloroplast inner membrane2.52E-02
46GO:0009522: photosystem I3.12E-02
47GO:0005759: mitochondrial matrix3.95E-02
48GO:0043231: intracellular membrane-bounded organelle3.99E-02
49GO:0010319: stromule4.12E-02
50GO:0016021: integral component of membrane4.97E-02
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Gene type



Gene DE type