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

AT4G39900

GO-BP
GO-MF
GO-CC
RankGO TermAdjusted P value
1GO:2000042: negative regulation of double-strand break repair via homologous recombination0.00E+00
2GO:0042821: pyridoxal biosynthetic process0.00E+00
3GO:0070272: proton-transporting ATP synthase complex biogenesis0.00E+00
4GO:0042820: vitamin B6 catabolic process0.00E+00
5GO:0032212: positive regulation of telomere maintenance via telomerase0.00E+00
6GO:0042493: response to drug0.00E+00
7GO:0032206: positive regulation of telomere maintenance0.00E+00
8GO:1905499: trichome papilla formation0.00E+00
9GO:0006437: tyrosyl-tRNA aminoacylation0.00E+00
10GO:0002184: cytoplasmic translational termination0.00E+00
11GO:0032194: ubiquinone biosynthetic process via 3,4-dihydroxy-5-polyprenylbenzoate0.00E+00
12GO:0070681: glutaminyl-tRNAGln biosynthesis via transamidation0.00E+00
13GO:0006223: uracil salvage0.00E+00
14GO:2000121: regulation of removal of superoxide radicals0.00E+00
15GO:0010207: photosystem II assembly2.42E-07
16GO:0032544: plastid translation7.95E-07
17GO:0010027: thylakoid membrane organization1.01E-06
18GO:0015995: chlorophyll biosynthetic process1.70E-06
19GO:0009773: photosynthetic electron transport in photosystem I3.95E-06
20GO:0015979: photosynthesis8.16E-06
21GO:0006412: translation8.53E-06
22GO:0009658: chloroplast organization1.79E-05
23GO:0042254: ribosome biogenesis1.91E-05
24GO:0006353: DNA-templated transcription, termination2.80E-05
25GO:0090391: granum assembly3.74E-05
26GO:0016024: CDP-diacylglycerol biosynthetic process1.39E-04
27GO:0006633: fatty acid biosynthetic process1.82E-04
28GO:0016123: xanthophyll biosynthetic process2.13E-04
29GO:0010411: xyloglucan metabolic process2.95E-04
30GO:0006655: phosphatidylglycerol biosynthetic process3.01E-04
31GO:1901259: chloroplast rRNA processing4.02E-04
32GO:0042372: phylloquinone biosynthetic process4.02E-04
33GO:0046520: sphingoid biosynthetic process5.00E-04
34GO:1904966: positive regulation of vitamin E biosynthetic process5.00E-04
35GO:1904964: positive regulation of phytol biosynthetic process5.00E-04
36GO:0042371: vitamin K biosynthetic process5.00E-04
37GO:0043686: co-translational protein modification5.00E-04
38GO:0043007: maintenance of rDNA5.00E-04
39GO:1902458: positive regulation of stomatal opening5.00E-04
40GO:0034337: RNA folding5.00E-04
41GO:0071596: ubiquitin-dependent protein catabolic process via the N-end rule pathway5.00E-04
42GO:0071588: hydrogen peroxide mediated signaling pathway5.00E-04
43GO:0010729: positive regulation of hydrogen peroxide biosynthetic process5.00E-04
44GO:0060627: regulation of vesicle-mediated transport5.00E-04
45GO:0009443: pyridoxal 5'-phosphate salvage5.00E-04
46GO:0010196: nonphotochemical quenching5.16E-04
47GO:0042255: ribosome assembly6.43E-04
48GO:0042335: cuticle development7.10E-04
49GO:0042546: cell wall biogenesis8.02E-04
50GO:0006783: heme biosynthetic process9.36E-04
51GO:0010206: photosystem II repair9.36E-04
52GO:1903426: regulation of reactive oxygen species biosynthetic process1.08E-03
53GO:0043039: tRNA aminoacylation1.08E-03
54GO:0080040: positive regulation of cellular response to phosphate starvation1.08E-03
55GO:1902326: positive regulation of chlorophyll biosynthetic process1.08E-03
56GO:0019388: galactose catabolic process1.08E-03
57GO:0032502: developmental process1.10E-03
58GO:0005975: carbohydrate metabolic process1.16E-03
59GO:0045454: cell redox homeostasis1.25E-03
60GO:0006782: protoporphyrinogen IX biosynthetic process1.28E-03
61GO:0010015: root morphogenesis1.48E-03
62GO:0006869: lipid transport1.50E-03
63GO:0046168: glycerol-3-phosphate catabolic process1.76E-03
64GO:0006424: glutamyl-tRNA aminoacylation2.56E-03
65GO:0009590: detection of gravity2.56E-03
66GO:0050482: arachidonic acid secretion2.56E-03
67GO:0009413: response to flooding2.56E-03
68GO:0071484: cellular response to light intensity2.56E-03
69GO:0009650: UV protection2.56E-03
70GO:0006072: glycerol-3-phosphate metabolic process2.56E-03
71GO:0043433: negative regulation of sequence-specific DNA binding transcription factor activity2.56E-03
72GO:0006021: inositol biosynthetic process3.44E-03
73GO:0019287: isopentenyl diphosphate biosynthetic process, mevalonate pathway3.44E-03
74GO:0044206: UMP salvage3.44E-03
75GO:0010037: response to carbon dioxide3.44E-03
76GO:0009956: radial pattern formation3.44E-03
77GO:0015976: carbon utilization3.44E-03
78GO:0019464: glycine decarboxylation via glycine cleavage system3.44E-03
79GO:0009765: photosynthesis, light harvesting3.44E-03
80GO:0006085: acetyl-CoA biosynthetic process3.44E-03
81GO:0006183: GTP biosynthetic process3.44E-03
82GO:2000122: negative regulation of stomatal complex development3.44E-03
83GO:0006546: glycine catabolic process3.44E-03
84GO:0032543: mitochondrial translation4.41E-03
85GO:0016120: carotene biosynthetic process4.41E-03
86GO:0010236: plastoquinone biosynthetic process4.41E-03
87GO:0045038: protein import into chloroplast thylakoid membrane4.41E-03
88GO:0043097: pyrimidine nucleoside salvage4.41E-03
89GO:0031365: N-terminal protein amino acid modification4.41E-03
90GO:0006665: sphingolipid metabolic process4.41E-03
91GO:0034052: positive regulation of plant-type hypersensitive response4.41E-03
92GO:0009735: response to cytokinin4.96E-03
93GO:0016117: carotenoid biosynthetic process5.18E-03
94GO:0006206: pyrimidine nucleobase metabolic process5.46E-03
95GO:0009117: nucleotide metabolic process5.46E-03
96GO:0046855: inositol phosphate dephosphorylation5.46E-03
97GO:0019288: isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway5.46E-03
98GO:0010190: cytochrome b6f complex assembly5.46E-03
99GO:0000413: protein peptidyl-prolyl isomerization5.60E-03
100GO:0009554: megasporogenesis6.60E-03
101GO:0010019: chloroplast-nucleus signaling pathway6.60E-03
102GO:0010555: response to mannitol6.60E-03
103GO:0000079: regulation of cyclin-dependent protein serine/threonine kinase activity6.60E-03
104GO:0009955: adaxial/abaxial pattern specification6.60E-03
105GO:0071470: cellular response to osmotic stress6.60E-03
106GO:0009612: response to mechanical stimulus6.60E-03
107GO:0009645: response to low light intensity stimulus7.80E-03
108GO:0006400: tRNA modification7.80E-03
109GO:0009772: photosynthetic electron transport in photosystem II7.80E-03
110GO:0010583: response to cyclopentenone7.99E-03
111GO:0071555: cell wall organization8.60E-03
112GO:0043068: positive regulation of programmed cell death9.09E-03
113GO:2000070: regulation of response to water deprivation9.09E-03
114GO:0006644: phospholipid metabolic process9.09E-03
115GO:0005978: glycogen biosynthetic process9.09E-03
116GO:0009819: drought recovery9.09E-03
117GO:0009642: response to light intensity9.09E-03
118GO:0055114: oxidation-reduction process1.02E-02
119GO:0017004: cytochrome complex assembly1.04E-02
120GO:0009932: cell tip growth1.04E-02
121GO:0015996: chlorophyll catabolic process1.04E-02
122GO:0007186: G-protein coupled receptor signaling pathway1.04E-02
123GO:0000902: cell morphogenesis1.19E-02
124GO:0042128: nitrate assimilation1.21E-02
125GO:0080167: response to karrikin1.27E-02
126GO:0009638: phototropism1.34E-02
127GO:0006779: porphyrin-containing compound biosynthetic process1.34E-02
128GO:0000723: telomere maintenance1.34E-02
129GO:0042761: very long-chain fatty acid biosynthetic process1.34E-02
130GO:0009817: defense response to fungus, incompatible interaction1.42E-02
131GO:0009870: defense response signaling pathway, resistance gene-dependent1.49E-02
132GO:0043069: negative regulation of programmed cell death1.49E-02
133GO:0009407: toxin catabolic process1.57E-02
134GO:0009409: response to cold1.64E-02
135GO:0006415: translational termination1.65E-02
136GO:0018119: peptidyl-cysteine S-nitrosylation1.65E-02
137GO:0019684: photosynthesis, light reaction1.65E-02
138GO:0045037: protein import into chloroplast stroma1.82E-02
139GO:0006790: sulfur compound metabolic process1.82E-02
140GO:0034599: cellular response to oxidative stress1.89E-02
141GO:0045490: pectin catabolic process1.97E-02
142GO:0010628: positive regulation of gene expression1.99E-02
143GO:0006006: glucose metabolic process1.99E-02
144GO:0050826: response to freezing1.99E-02
145GO:0009725: response to hormone1.99E-02
146GO:0009767: photosynthetic electron transport chain1.99E-02
147GO:0030001: metal ion transport2.06E-02
148GO:0009933: meristem structural organization2.17E-02
149GO:0010143: cutin biosynthetic process2.17E-02
150GO:0016042: lipid catabolic process2.18E-02
151GO:0007166: cell surface receptor signaling pathway2.34E-02
152GO:0046854: phosphatidylinositol phosphorylation2.36E-02
153GO:0019853: L-ascorbic acid biosynthetic process2.36E-02
154GO:0010167: response to nitrate2.36E-02
155GO:0010025: wax biosynthetic process2.55E-02
156GO:0009636: response to toxic substance2.62E-02
157GO:0051017: actin filament bundle assembly2.74E-02
158GO:0019344: cysteine biosynthetic process2.74E-02
159GO:0009116: nucleoside metabolic process2.74E-02
160GO:0000027: ribosomal large subunit assembly2.74E-02
161GO:0042538: hyperosmotic salinity response2.93E-02
162GO:0006418: tRNA aminoacylation for protein translation2.94E-02
163GO:0016998: cell wall macromolecule catabolic process3.15E-02
164GO:0048511: rhythmic process3.15E-02
165GO:0061077: chaperone-mediated protein folding3.15E-02
166GO:0031348: negative regulation of defense response3.35E-02
167GO:0009814: defense response, incompatible interaction3.35E-02
168GO:0009411: response to UV3.57E-02
169GO:0006012: galactose metabolic process3.57E-02
170GO:0009831: plant-type cell wall modification involved in multidimensional cell growth3.57E-02
171GO:0019722: calcium-mediated signaling3.79E-02
172GO:0009306: protein secretion3.79E-02
173GO:0010091: trichome branching3.79E-02
174GO:0009789: positive regulation of abscisic acid-activated signaling pathway4.01E-02
175GO:0008033: tRNA processing4.24E-02
176GO:0010305: leaf vascular tissue pattern formation4.47E-02
177GO:0010182: sugar mediated signaling pathway4.47E-02
178GO:0042752: regulation of circadian rhythm4.71E-02
179GO:0019252: starch biosynthetic process4.94E-02
RankGO TermAdjusted P value
1GO:0050518: 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity0.00E+00
2GO:0051744: 3,8-divinyl protochlorophyllide a 8-vinyl reductase activity0.00E+00
3GO:0046428: 1,4-dihydroxy-2-naphthoate octaprenyltransferase activity0.00E+00
4GO:0045435: lycopene epsilon cyclase activity0.00E+00
5GO:0050421: nitrite reductase (NO-forming) activity0.00E+00
6GO:0019166: trans-2-enoyl-CoA reductase (NADPH) activity0.00E+00
7GO:0008756: o-succinylbenzoate-CoA ligase activity0.00E+00
8GO:0019146: arabinose-5-phosphate isomerase activity0.00E+00
9GO:0004318: enoyl-[acyl-carrier-protein] reductase (NADH) activity0.00E+00
10GO:0047889: ferredoxin-nitrate reductase activity0.00E+00
11GO:0033728: divinyl chlorophyllide a 8-vinyl-reductase activity0.00E+00
12GO:0047450: crotonoyl-[acyl-carrier-protein] hydratase activity0.00E+00
13GO:0050567: glutaminyl-tRNA synthase (glutamine-hydrolyzing) activity0.00E+00
14GO:0050236: pyridoxine:NADP 4-dehydrogenase activity0.00E+00
15GO:0016631: enoyl-[acyl-carrier-protein] reductase activity0.00E+00
16GO:0004496: mevalonate kinase activity0.00E+00
17GO:0048307: ferredoxin-nitrite reductase activity0.00E+00
18GO:0019843: rRNA binding5.29E-13
19GO:0051920: peroxiredoxin activity1.35E-07
20GO:0016209: antioxidant activity4.75E-07
21GO:0016851: magnesium chelatase activity5.87E-07
22GO:0003735: structural constituent of ribosome1.47E-06
23GO:0019171: 3-hydroxyacyl-[acyl-carrier-protein] dehydratase activity1.10E-05
24GO:0003755: peptidyl-prolyl cis-trans isomerase activity1.59E-05
25GO:0005528: FK506 binding1.96E-05
26GO:0003865: 3-oxo-5-alpha-steroid 4-dehydrogenase activity8.00E-05
27GO:0016762: xyloglucan:xyloglucosyl transferase activity1.17E-04
28GO:0016798: hydrolase activity, acting on glycosyl bonds2.95E-04
29GO:0004366: glycerol-3-phosphate O-acyltransferase activity3.01E-04
30GO:0004831: tyrosine-tRNA ligase activity5.00E-04
31GO:0009374: biotin binding5.00E-04
32GO:0004853: uroporphyrinogen decarboxylase activity5.00E-04
33GO:0042586: peptide deformylase activity5.00E-04
34GO:0010347: L-galactose-1-phosphate phosphatase activity5.00E-04
35GO:0000170: sphingosine hydroxylase activity5.00E-04
36GO:0030794: (S)-coclaurine-N-methyltransferase activity5.00E-04
37GO:0004560: alpha-L-fucosidase activity5.00E-04
38GO:0080132: fatty acid alpha-hydroxylase activity5.00E-04
39GO:0004601: peroxidase activity5.70E-04
40GO:0004033: aldo-keto reductase (NADP) activity6.43E-04
41GO:0016627: oxidoreductase activity, acting on the CH-CH group of donors9.36E-04
42GO:0052689: carboxylic ester hydrolase activity1.07E-03
43GO:0004614: phosphoglucomutase activity1.08E-03
44GO:0052833: inositol monophosphate 4-phosphatase activity1.08E-03
45GO:0008289: lipid binding1.08E-03
46GO:0008883: glutamyl-tRNA reductase activity1.08E-03
47GO:0003938: IMP dehydrogenase activity1.08E-03
48GO:0052832: inositol monophosphate 3-phosphatase activity1.08E-03
49GO:0042284: sphingolipid delta-4 desaturase activity1.08E-03
50GO:0008934: inositol monophosphate 1-phosphatase activity1.08E-03
51GO:0004553: hydrolase activity, hydrolyzing O-glycosyl compounds1.10E-03
52GO:0004148: dihydrolipoyl dehydrogenase activity1.76E-03
53GO:0030267: glyoxylate reductase (NADP) activity1.76E-03
54GO:0004367: glycerol-3-phosphate dehydrogenase [NAD+] activity1.76E-03
55GO:0070402: NADPH binding1.76E-03
56GO:0016788: hydrolase activity, acting on ester bonds2.40E-03
57GO:0016149: translation release factor activity, codon specific2.56E-03
58GO:0043023: ribosomal large subunit binding2.56E-03
59GO:0008097: 5S rRNA binding2.56E-03
60GO:0003878: ATP citrate synthase activity2.56E-03
61GO:0004375: glycine dehydrogenase (decarboxylating) activity2.56E-03
62GO:0035529: NADH pyrophosphatase activity2.56E-03
63GO:0043047: single-stranded telomeric DNA binding2.56E-03
64GO:0043495: protein anchor3.44E-03
65GO:0003841: 1-acylglycerol-3-phosphate O-acyltransferase activity3.44E-03
66GO:0004659: prenyltransferase activity3.44E-03
67GO:0004845: uracil phosphoribosyltransferase activity3.44E-03
68GO:0016836: hydro-lyase activity3.44E-03
69GO:1990137: plant seed peroxidase activity3.44E-03
70GO:0030570: pectate lyase activity4.39E-03
71GO:0004623: phospholipase A2 activity4.41E-03
72GO:0004040: amidase activity4.41E-03
73GO:0003989: acetyl-CoA carboxylase activity4.41E-03
74GO:0009922: fatty acid elongase activity4.41E-03
75GO:0003727: single-stranded RNA binding4.78E-03
76GO:0004130: cytochrome-c peroxidase activity5.46E-03
77GO:0016208: AMP binding5.46E-03
78GO:0016462: pyrophosphatase activity5.46E-03
79GO:0016688: L-ascorbate peroxidase activity5.46E-03
80GO:0090447: glycerol-3-phosphate 2-O-acyltransferase activity5.46E-03
81GO:0003690: double-stranded DNA binding6.54E-03
82GO:0045156: electron transporter, transferring electrons within the cyclic electron transport pathway of photosynthesis activity6.60E-03
83GO:0008441: 3'(2'),5'-bisphosphate nucleotidase activity6.60E-03
84GO:0051753: mannan synthase activity6.60E-03
85GO:0004849: uridine kinase activity6.60E-03
86GO:0004616: phosphogluconate dehydrogenase (decarboxylating) activity6.60E-03
87GO:0005509: calcium ion binding7.23E-03
88GO:0019899: enzyme binding7.80E-03
89GO:0043295: glutathione binding7.80E-03
90GO:0042162: telomeric DNA binding7.80E-03
91GO:0004034: aldose 1-epimerase activity9.09E-03
92GO:0003747: translation release factor activity1.19E-02
93GO:0008794: arsenate reductase (glutaredoxin) activity1.65E-02
94GO:0004675: transmembrane receptor protein serine/threonine kinase activity1.81E-02
95GO:0008378: galactosyltransferase activity1.82E-02
96GO:0004089: carbonate dehydratase activity1.99E-02
97GO:0051539: 4 iron, 4 sulfur cluster binding2.06E-02
98GO:0004364: glutathione transferase activity2.24E-02
99GO:0009055: electron carrier activity2.52E-02
100GO:0051537: 2 iron, 2 sulfur cluster binding2.52E-02
101GO:0102337: 3-oxo-cerotoyl-CoA synthase activity2.55E-02
102GO:0102338: 3-oxo-lignoceronyl-CoA synthase activity2.55E-02
103GO:0102336: 3-oxo-arachidoyl-CoA synthase activity2.55E-02
104GO:0022891: substrate-specific transmembrane transporter activity3.57E-02
105GO:0008514: organic anion transmembrane transporter activity3.79E-02
106GO:0016491: oxidoreductase activity3.84E-02
107GO:0004812: aminoacyl-tRNA ligase activity4.01E-02
108GO:0004650: polygalacturonase activity4.08E-02
109GO:0016746: transferase activity, transferring acyl groups4.59E-02
110GO:0016853: isomerase activity4.71E-02
111GO:0004872: receptor activity4.94E-02
112GO:0019901: protein kinase binding4.94E-02
RankGO TermAdjusted P value
1GO:0009515: granal stacked thylakoid0.00E+00
2GO:0005835: fatty acid synthase complex0.00E+00
3GO:0030956: glutamyl-tRNA(Gln) amidotransferase complex0.00E+00
4GO:0009507: chloroplast7.96E-44
5GO:0009570: chloroplast stroma4.91E-30
6GO:0009579: thylakoid6.12E-24
7GO:0009535: chloroplast thylakoid membrane9.23E-24
8GO:0009543: chloroplast thylakoid lumen6.63E-22
9GO:0009941: chloroplast envelope9.81E-20
10GO:0031977: thylakoid lumen7.49E-16
11GO:0009534: chloroplast thylakoid1.90E-15
12GO:0048046: apoplast8.42E-10
13GO:0031225: anchored component of membrane2.06E-08
14GO:0010007: magnesium chelatase complex1.23E-07
15GO:0009505: plant-type cell wall4.65E-07
16GO:0009654: photosystem II oxygen evolving complex8.43E-07
17GO:0005840: ribosome9.92E-07
18GO:0046658: anchored component of plasma membrane1.05E-06
19GO:0019898: extrinsic component of membrane6.34E-06
20GO:0010319: stromule1.84E-04
21GO:0030095: chloroplast photosystem II2.01E-04
22GO:0031969: chloroplast membrane2.07E-04
23GO:0005618: cell wall2.16E-04
24GO:0009923: fatty acid elongase complex5.00E-04
25GO:0009344: nitrite reductase complex [NAD(P)H]5.00E-04
26GO:0009536: plastid6.45E-04
27GO:0005576: extracellular region9.28E-04
28GO:0010598: NAD(P)H dehydrogenase complex (plastoquinone)9.36E-04
29GO:0005697: telomerase holoenzyme complex1.08E-03
30GO:0030093: chloroplast photosystem I1.08E-03
31GO:0000311: plastid large ribosomal subunit1.70E-03
32GO:0009317: acetyl-CoA carboxylase complex1.76E-03
33GO:0009528: plastid inner membrane1.76E-03
34GO:0009331: glycerol-3-phosphate dehydrogenase complex2.56E-03
35GO:0009346: citrate lyase complex2.56E-03
36GO:0005960: glycine cleavage complex2.56E-03
37GO:0042651: thylakoid membrane3.34E-03
38GO:0009527: plastid outer membrane3.44E-03
39GO:0009533: chloroplast stromal thylakoid7.80E-03
40GO:0005811: lipid particle1.04E-02
41GO:0000784: nuclear chromosome, telomeric region1.04E-02
42GO:0005763: mitochondrial small ribosomal subunit1.19E-02
43GO:0016020: membrane1.33E-02
44GO:0009707: chloroplast outer membrane1.42E-02
45GO:0032040: small-subunit processome1.82E-02
46GO:0009508: plastid chromosome1.99E-02
47GO:0043234: protein complex2.55E-02
48GO:0009532: plastid stroma3.15E-02
49GO:0015935: small ribosomal subunit3.15E-02
50GO:0031410: cytoplasmic vesicle3.35E-02
51GO:0015629: actin cytoskeleton3.57E-02
52GO:0009706: chloroplast inner membrane4.46E-02
53GO:0009522: photosystem I4.71E-02
54GO:0009523: photosystem II4.94E-02
55GO:0005886: plasma membrane4.94E-02
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Gene type



Gene DE type