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

AT1G54500

GO-BP
GO-MF
GO-CC
RankGO TermAdjusted P value
1GO:0070681: glutaminyl-tRNAGln biosynthesis via transamidation0.00E+00
2GO:0006428: isoleucyl-tRNA aminoacylation0.00E+00
3GO:0009773: photosynthetic electron transport in photosystem I1.56E-10
4GO:0010027: thylakoid membrane organization1.67E-07
5GO:0032544: plastid translation2.14E-07
6GO:0090391: granum assembly1.84E-05
7GO:0010258: NADH dehydrogenase complex (plastoquinone) assembly4.07E-05
8GO:0015979: photosynthesis6.20E-05
9GO:0055114: oxidation-reduction process6.58E-05
10GO:0006086: acetyl-CoA biosynthetic process from pyruvate1.63E-04
11GO:1901259: chloroplast rRNA processing2.22E-04
12GO:0010196: nonphotochemical quenching2.89E-04
13GO:1902458: positive regulation of stomatal opening3.40E-04
14GO:0071588: hydrogen peroxide mediated signaling pathway3.40E-04
15GO:0060627: regulation of vesicle-mediated transport3.40E-04
16GO:1904966: positive regulation of vitamin E biosynthetic process3.40E-04
17GO:1904964: positive regulation of phytol biosynthetic process3.40E-04
18GO:0033481: galacturonate biosynthetic process3.40E-04
19GO:0043087: regulation of GTPase activity3.40E-04
20GO:0009657: plastid organization4.45E-04
21GO:0080183: response to photooxidative stress7.40E-04
22GO:0008616: queuosine biosynthetic process7.40E-04
23GO:1903426: regulation of reactive oxygen species biosynthetic process7.40E-04
24GO:0030388: fructose 1,6-bisphosphate metabolic process7.40E-04
25GO:1902326: positive regulation of chlorophyll biosynthetic process7.40E-04
26GO:0009658: chloroplast organization8.32E-04
27GO:0018298: protein-chromophore linkage1.09E-03
28GO:0090506: axillary shoot meristem initiation1.20E-03
29GO:0006000: fructose metabolic process1.20E-03
30GO:0006518: peptide metabolic process1.20E-03
31GO:0015675: nickel cation transport1.20E-03
32GO:0009062: fatty acid catabolic process1.20E-03
33GO:0006013: mannose metabolic process1.20E-03
34GO:0051604: protein maturation1.20E-03
35GO:0045454: cell redox homeostasis1.66E-03
36GO:0051639: actin filament network formation1.72E-03
37GO:0019048: modulation by virus of host morphology or physiology1.72E-03
38GO:0006424: glutamyl-tRNA aminoacylation1.72E-03
39GO:1901332: negative regulation of lateral root development1.72E-03
40GO:0031048: chromatin silencing by small RNA1.72E-03
41GO:0016556: mRNA modification1.72E-03
42GO:0055070: copper ion homeostasis1.72E-03
43GO:0006810: transport1.88E-03
44GO:0030245: cellulose catabolic process2.26E-03
45GO:0051764: actin crosslink formation2.31E-03
46GO:0009765: photosynthesis, light harvesting2.31E-03
47GO:0031122: cytoplasmic microtubule organization2.31E-03
48GO:0006546: glycine catabolic process2.31E-03
49GO:0051567: histone H3-K9 methylation2.31E-03
50GO:0071483: cellular response to blue light2.31E-03
51GO:0009956: radial pattern formation2.31E-03
52GO:0071555: cell wall organization2.40E-03
53GO:0042538: hyperosmotic salinity response2.72E-03
54GO:0016117: carotenoid biosynthetic process2.90E-03
55GO:0006461: protein complex assembly2.96E-03
56GO:0016123: xanthophyll biosynthetic process2.96E-03
57GO:0080110: sporopollenin biosynthetic process2.96E-03
58GO:0032543: mitochondrial translation2.96E-03
59GO:0016120: carotene biosynthetic process2.96E-03
60GO:0006656: phosphatidylcholine biosynthetic process2.96E-03
61GO:0010236: plastoquinone biosynthetic process2.96E-03
62GO:0045038: protein import into chloroplast thylakoid membrane2.96E-03
63GO:0042549: photosystem II stabilization3.65E-03
64GO:0006555: methionine metabolic process3.65E-03
65GO:0010358: leaf shaping3.65E-03
66GO:0010190: cytochrome b6f complex assembly3.65E-03
67GO:0009920: cell plate formation involved in plant-type cell wall biogenesis3.65E-03
68GO:0016458: gene silencing3.65E-03
69GO:0016132: brassinosteroid biosynthetic process4.17E-03
70GO:0010019: chloroplast-nucleus signaling pathway4.40E-03
71GO:0009955: adaxial/abaxial pattern specification4.40E-03
72GO:0010067: procambium histogenesis4.40E-03
73GO:0017148: negative regulation of translation4.40E-03
74GO:0006694: steroid biosynthetic process4.40E-03
75GO:2000033: regulation of seed dormancy process4.40E-03
76GO:0010189: vitamin E biosynthetic process4.40E-03
77GO:0010090: trichome morphogenesis4.74E-03
78GO:0006400: tRNA modification5.19E-03
79GO:0050829: defense response to Gram-negative bacterium5.19E-03
80GO:0006826: iron ion transport5.19E-03
81GO:0009735: response to cytokinin5.62E-03
82GO:0007155: cell adhesion6.03E-03
83GO:0048564: photosystem I assembly6.03E-03
84GO:0009938: negative regulation of gibberellic acid mediated signaling pathway6.03E-03
85GO:0008610: lipid biosynthetic process6.03E-03
86GO:0042255: ribosome assembly6.03E-03
87GO:0006353: DNA-templated transcription, termination6.03E-03
88GO:2000070: regulation of response to water deprivation6.03E-03
89GO:0045010: actin nucleation6.03E-03
90GO:0006412: translation6.74E-03
91GO:0017004: cytochrome complex assembly6.92E-03
92GO:0009808: lignin metabolic process6.92E-03
93GO:0006002: fructose 6-phosphate metabolic process6.92E-03
94GO:0071482: cellular response to light stimulus6.92E-03
95GO:0022900: electron transport chain6.92E-03
96GO:0015996: chlorophyll catabolic process6.92E-03
97GO:0009827: plant-type cell wall modification6.92E-03
98GO:0007186: G-protein coupled receptor signaling pathway6.92E-03
99GO:0015995: chlorophyll biosynthetic process7.10E-03
100GO:0000902: cell morphogenesis7.85E-03
101GO:0006869: lipid transport7.87E-03
102GO:0009817: defense response to fungus, incompatible interaction7.88E-03
103GO:0009834: plant-type secondary cell wall biogenesis8.69E-03
104GO:0035999: tetrahydrofolate interconversion8.82E-03
105GO:1900865: chloroplast RNA modification8.82E-03
106GO:0031425: chloroplast RNA processing8.82E-03
107GO:0019538: protein metabolic process9.84E-03
108GO:0030422: production of siRNA involved in RNA interference9.84E-03
109GO:0009867: jasmonic acid mediated signaling pathway1.00E-02
110GO:0034599: cellular response to oxidative stress1.05E-02
111GO:0010015: root morphogenesis1.09E-02
112GO:0009073: aromatic amino acid family biosynthetic process1.09E-02
113GO:0043085: positive regulation of catalytic activity1.09E-02
114GO:0006352: DNA-templated transcription, initiation1.09E-02
115GO:0006415: translational termination1.09E-02
116GO:0018119: peptidyl-cysteine S-nitrosylation1.09E-02
117GO:0006839: mitochondrial transport1.14E-02
118GO:0045037: protein import into chloroplast stroma1.20E-02
119GO:0030036: actin cytoskeleton organization1.31E-02
120GO:0006094: gluconeogenesis1.31E-02
121GO:0005986: sucrose biosynthetic process1.31E-02
122GO:0010207: photosystem II assembly1.43E-02
123GO:0009933: meristem structural organization1.43E-02
124GO:0019253: reductive pentose-phosphate cycle1.43E-02
125GO:0010223: secondary shoot formation1.43E-02
126GO:0009225: nucleotide-sugar metabolic process1.55E-02
127GO:0046688: response to copper ion1.55E-02
128GO:0005985: sucrose metabolic process1.55E-02
129GO:0010039: response to iron ion1.55E-02
130GO:0090351: seedling development1.55E-02
131GO:0019762: glucosinolate catabolic process1.67E-02
132GO:0042254: ribosome biogenesis1.67E-02
133GO:0009863: salicylic acid mediated signaling pathway1.80E-02
134GO:0051017: actin filament bundle assembly1.80E-02
135GO:0010187: negative regulation of seed germination1.80E-02
136GO:2000377: regulation of reactive oxygen species metabolic process1.80E-02
137GO:0006418: tRNA aminoacylation for protein translation1.93E-02
138GO:0009695: jasmonic acid biosynthetic process1.93E-02
139GO:0007017: microtubule-based process1.93E-02
140GO:0009768: photosynthesis, light harvesting in photosystem I1.93E-02
141GO:0006096: glycolytic process2.07E-02
142GO:0061077: chaperone-mediated protein folding2.07E-02
143GO:0031408: oxylipin biosynthetic process2.07E-02
144GO:0006306: DNA methylation2.07E-02
145GO:0016998: cell wall macromolecule catabolic process2.07E-02
146GO:0080092: regulation of pollen tube growth2.21E-02
147GO:0006730: one-carbon metabolic process2.21E-02
148GO:0007169: transmembrane receptor protein tyrosine kinase signaling pathway2.24E-02
149GO:0009294: DNA mediated transformation2.35E-02
150GO:0009411: response to UV2.35E-02
151GO:0001944: vasculature development2.35E-02
152GO:0010089: xylem development2.49E-02
153GO:0010584: pollen exine formation2.49E-02
154GO:0019722: calcium-mediated signaling2.49E-02
155GO:0010087: phloem or xylem histogenesis2.79E-02
156GO:0042335: cuticle development2.79E-02
157GO:0000413: protein peptidyl-prolyl isomerization2.79E-02
158GO:0010182: sugar mediated signaling pathway2.94E-02
159GO:0048868: pollen tube development2.94E-02
160GO:0006342: chromatin silencing2.94E-02
161GO:0009741: response to brassinosteroid2.94E-02
162GO:0010268: brassinosteroid homeostasis2.94E-02
163GO:0045489: pectin biosynthetic process2.94E-02
164GO:0006662: glycerol ether metabolic process2.94E-02
165GO:0010305: leaf vascular tissue pattern formation2.94E-02
166GO:0080156: mitochondrial mRNA modification3.42E-02
167GO:0048510: regulation of timing of transition from vegetative to reproductive phase3.42E-02
168GO:0000302: response to reactive oxygen species3.42E-02
169GO:0006635: fatty acid beta-oxidation3.42E-02
170GO:0042744: hydrogen peroxide catabolic process3.55E-02
171GO:0032502: developmental process3.58E-02
172GO:0007264: small GTPase mediated signal transduction3.58E-02
173GO:0009790: embryo development3.63E-02
174GO:0009409: response to cold3.68E-02
175GO:0009753: response to jasmonic acid3.80E-02
176GO:0016125: sterol metabolic process3.92E-02
177GO:0010286: heat acclimation4.09E-02
178GO:0071805: potassium ion transmembrane transport4.09E-02
179GO:0007267: cell-cell signaling4.09E-02
180GO:0051607: defense response to virus4.26E-02
181GO:0005975: carbohydrate metabolic process4.43E-02
182GO:0009607: response to biotic stimulus4.62E-02
183GO:0009816: defense response to bacterium, incompatible interaction4.62E-02
184GO:0009739: response to gibberellin4.79E-02
185GO:0010411: xyloglucan metabolic process4.98E-02
RankGO TermAdjusted P value
1GO:1990534: thermospermine oxidase activity0.00E+00
2GO:0050614: delta24-sterol reductase activity0.00E+00
3GO:0009974: zeinoxanthin epsilon hydroxylase activity0.00E+00
4GO:0033728: divinyl chlorophyllide a 8-vinyl-reductase activity0.00E+00
5GO:0047450: crotonoyl-[acyl-carrier-protein] hydratase activity0.00E+00
6GO:0052667: phosphomethylethanolamine N-methyltransferase activity0.00E+00
7GO:0102550: 2-methyl-6-geranylgeranyl-1,4-benzoquinol methyltransferase activity0.00E+00
8GO:0051744: 3,8-divinyl protochlorophyllide a 8-vinyl reductase activity0.00E+00
9GO:0045435: lycopene epsilon cyclase activity0.00E+00
10GO:0004822: isoleucine-tRNA ligase activity0.00E+00
11GO:0019843: rRNA binding1.14E-07
12GO:0051920: peroxiredoxin activity4.46E-06
13GO:0016209: antioxidant activity1.07E-05
14GO:0016655: oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor7.23E-05
15GO:0004739: pyruvate dehydrogenase (acetyl-transferring) activity7.23E-05
16GO:0051741: 2-methyl-6-phytyl-1,4-benzoquinone methyltransferase activity3.40E-04
17GO:0010012: steroid 22-alpha hydroxylase activity3.40E-04
18GO:0008809: carnitine racemase activity3.40E-04
19GO:0047259: glucomannan 4-beta-mannosyltransferase activity3.40E-04
20GO:0050567: glutaminyl-tRNA synthase (glutamine-hydrolyzing) activity3.40E-04
21GO:0009496: plastoquinol--plastocyanin reductase activity3.40E-04
22GO:0008568: microtubule-severing ATPase activity3.40E-04
23GO:0046028: electron transporter, transferring electrons from cytochrome b6/f complex of photosystem II activity3.40E-04
24GO:0004321: fatty-acyl-CoA synthase activity3.40E-04
25GO:0003867: 4-aminobutyrate transaminase activity3.40E-04
26GO:0004489: methylenetetrahydrofolate reductase (NAD(P)H) activity3.40E-04
27GO:0005080: protein kinase C binding3.40E-04
28GO:0003755: peptidyl-prolyl cis-trans isomerase activity3.91E-04
29GO:0004047: aminomethyltransferase activity7.40E-04
30GO:0042132: fructose 1,6-bisphosphate 1-phosphatase activity7.40E-04
31GO:0008479: queuine tRNA-ribosyltransferase activity7.40E-04
32GO:0016630: protochlorophyllide reductase activity7.40E-04
33GO:0008805: carbon-monoxide oxygenase activity7.40E-04
34GO:0019171: 3-hydroxyacyl-[acyl-carrier-protein] dehydratase activity7.40E-04
35GO:0004802: transketolase activity7.40E-04
36GO:0015099: nickel cation transmembrane transporter activity7.40E-04
37GO:0000234: phosphoethanolamine N-methyltransferase activity7.40E-04
38GO:0008967: phosphoglycolate phosphatase activity7.40E-04
39GO:0004601: peroxidase activity8.32E-04
40GO:0004565: beta-galactosidase activity1.10E-03
41GO:0070330: aromatase activity1.20E-03
42GO:0003913: DNA photolyase activity1.20E-03
43GO:0002161: aminoacyl-tRNA editing activity1.20E-03
44GO:0004148: dihydrolipoyl dehydrogenase activity1.20E-03
45GO:0030267: glyoxylate reductase (NADP) activity1.20E-03
46GO:0003735: structural constituent of ribosome1.37E-03
47GO:0016491: oxidoreductase activity1.45E-03
48GO:0016149: translation release factor activity, codon specific1.72E-03
49GO:0035197: siRNA binding1.72E-03
50GO:0004165: dodecenoyl-CoA delta-isomerase activity1.72E-03
51GO:0001053: plastid sigma factor activity2.31E-03
52GO:0016987: sigma factor activity2.31E-03
53GO:0004607: phosphatidylcholine-sterol O-acyltransferase activity2.31E-03
54GO:0050378: UDP-glucuronate 4-epimerase activity2.31E-03
55GO:0043495: protein anchor2.31E-03
56GO:0008810: cellulase activity2.46E-03
57GO:0003824: catalytic activity2.94E-03
58GO:0008374: O-acyltransferase activity2.96E-03
59GO:0003959: NADPH dehydrogenase activity2.96E-03
60GO:0018685: alkane 1-monooxygenase activity2.96E-03
61GO:0004130: cytochrome-c peroxidase activity3.65E-03
62GO:0016688: L-ascorbate peroxidase activity3.65E-03
63GO:0048038: quinone binding4.17E-03
64GO:0004559: alpha-mannosidase activity4.40E-03
65GO:0051753: mannan synthase activity4.40E-03
66GO:0004616: phosphogluconate dehydrogenase (decarboxylating) activity4.40E-03
67GO:0016831: carboxy-lyase activity5.19E-03
68GO:0009881: photoreceptor activity5.19E-03
69GO:0019899: enzyme binding5.19E-03
70GO:0004620: phospholipase activity5.19E-03
71GO:0008237: metallopeptidase activity5.37E-03
72GO:0052747: sinapyl alcohol dehydrogenase activity6.03E-03
73GO:0004033: aldo-keto reductase (NADP) activity6.03E-03
74GO:0016168: chlorophyll binding6.38E-03
75GO:0003747: translation release factor activity7.85E-03
76GO:0016207: 4-coumarate-CoA ligase activity7.85E-03
77GO:0000989: transcription factor activity, transcription factor binding7.85E-03
78GO:0004222: metalloendopeptidase activity8.69E-03
79GO:0003924: GTPase activity9.40E-03
80GO:0030234: enzyme regulator activity9.84E-03
81GO:0008047: enzyme activator activity9.84E-03
82GO:0009055: electron carrier activity1.05E-02
83GO:0004553: hydrolase activity, hydrolyzing O-glycosyl compounds1.07E-02
84GO:0047372: acylglycerol lipase activity1.09E-02
85GO:0005089: Rho guanyl-nucleotide exchange factor activity1.09E-02
86GO:0004521: endoribonuclease activity1.20E-02
87GO:0000049: tRNA binding1.20E-02
88GO:0045551: cinnamyl-alcohol dehydrogenase activity1.20E-02
89GO:0031072: heat shock protein binding1.31E-02
90GO:0051537: 2 iron, 2 sulfur cluster binding1.40E-02
91GO:0008083: growth factor activity1.43E-02
92GO:0008131: primary amine oxidase activity1.43E-02
93GO:0042973: glucan endo-1,3-beta-D-glucosidase activity1.43E-02
94GO:0008289: lipid binding1.55E-02
95GO:0031409: pigment binding1.67E-02
96GO:0005528: FK506 binding1.80E-02
97GO:0015079: potassium ion transmembrane transporter activity1.93E-02
98GO:0004176: ATP-dependent peptidase activity2.07E-02
99GO:0033612: receptor serine/threonine kinase binding2.07E-02
100GO:0022891: substrate-specific transmembrane transporter activity2.35E-02
101GO:0003727: single-stranded RNA binding2.49E-02
102GO:0047134: protein-disulfide reductase activity2.64E-02
103GO:0004812: aminoacyl-tRNA ligase activity2.64E-02
104GO:0005102: receptor binding2.64E-02
105GO:0004791: thioredoxin-disulfide reductase activity3.10E-02
106GO:0050662: coenzyme binding3.10E-02
107GO:0016705: oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen3.20E-02
108GO:0016762: xyloglucan:xyloglucosyl transferase activity3.42E-02
109GO:0030246: carbohydrate binding3.45E-02
110GO:0051015: actin filament binding3.75E-02
111GO:0016671: oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor3.75E-02
112GO:0016759: cellulose synthase activity3.92E-02
113GO:0008483: transaminase activity4.09E-02
114GO:0016722: oxidoreductase activity, oxidizing metal ions4.09E-02
115GO:0005200: structural constituent of cytoskeleton4.09E-02
116GO:0016413: O-acetyltransferase activity4.26E-02
117GO:0005525: GTP binding4.60E-02
118GO:0016798: hydrolase activity, acting on glycosyl bonds4.98E-02
RankGO TermAdjusted P value
1GO:0009515: granal stacked thylakoid0.00E+00
2GO:0009507: chloroplast9.59E-43
3GO:0009535: chloroplast thylakoid membrane8.70E-32
4GO:0009941: chloroplast envelope6.88E-23
5GO:0009534: chloroplast thylakoid5.70E-18
6GO:0009570: chloroplast stroma8.79E-17
7GO:0009579: thylakoid2.41E-14
8GO:0010598: NAD(P)H dehydrogenase complex (plastoquinone)2.40E-11
9GO:0048046: apoplast4.71E-08
10GO:0009543: chloroplast thylakoid lumen1.14E-07
11GO:0009536: plastid2.20E-05
12GO:0031977: thylakoid lumen2.51E-05
13GO:0055035: plastid thylakoid membrane1.13E-04
14GO:0005840: ribosome2.48E-04
15GO:0009533: chloroplast stromal thylakoid2.89E-04
16GO:0030956: glutamyl-tRNA(Gln) amidotransferase complex3.40E-04
17GO:0009505: plant-type cell wall4.10E-04
18GO:0046658: anchored component of plasma membrane6.31E-04
19GO:0010319: stromule6.78E-04
20GO:0000311: plastid large ribosomal subunit9.69E-04
21GO:0009528: plastid inner membrane1.20E-03
22GO:0015934: large ribosomal subunit1.31E-03
23GO:0015630: microtubule cytoskeleton1.72E-03
24GO:0032432: actin filament bundle1.72E-03
25GO:0005719: nuclear euchromatin1.72E-03
26GO:0009654: photosystem II oxygen evolving complex1.88E-03
27GO:0042651: thylakoid membrane1.88E-03
28GO:0009527: plastid outer membrane2.31E-03
29GO:0009526: plastid envelope2.31E-03
30GO:0009512: cytochrome b6f complex2.96E-03
31GO:0005618: cell wall3.22E-03
32GO:0031209: SCAR complex3.65E-03
33GO:0009523: photosystem II3.89E-03
34GO:0016021: integral component of membrane4.53E-03
35GO:0009706: chloroplast inner membrane4.66E-03
36GO:0010287: plastoglobule5.80E-03
37GO:0030529: intracellular ribonucleoprotein complex6.03E-03
38GO:0009539: photosystem II reaction center6.92E-03
39GO:0005763: mitochondrial small ribosomal subunit7.85E-03
40GO:0015030: Cajal body8.82E-03
41GO:0016324: apical plasma membrane9.84E-03
42GO:0005884: actin filament1.09E-02
43GO:0005578: proteinaceous extracellular matrix1.31E-02
44GO:0009508: plastid chromosome1.31E-02
45GO:0009574: preprophase band1.31E-02
46GO:0031225: anchored component of membrane1.42E-02
47GO:0030095: chloroplast photosystem II1.43E-02
48GO:0000312: plastid small ribosomal subunit1.43E-02
49GO:0005802: trans-Golgi network1.49E-02
50GO:0030076: light-harvesting complex1.55E-02
51GO:0005768: endosome1.86E-02
52GO:0009532: plastid stroma2.07E-02
53GO:0031969: chloroplast membrane2.14E-02
54GO:0009522: photosystem I3.10E-02
55GO:0019898: extrinsic component of membrane3.25E-02
56GO:0032580: Golgi cisterna membrane3.92E-02
57GO:0009295: nucleoid4.09E-02
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Gene type



Gene DE type