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

AT5G53860

GO-BP
GO-MF
GO-CC
RankGO TermAdjusted P value
1GO:1901918: negative regulation of exoribonuclease activity0.00E+00
2GO:0032194: ubiquinone biosynthetic process via 3,4-dihydroxy-5-polyprenylbenzoate0.00E+00
3GO:0070681: glutaminyl-tRNAGln biosynthesis via transamidation0.00E+00
4GO:0016553: base conversion or substitution editing0.00E+00
5GO:2000121: regulation of removal of superoxide radicals0.00E+00
6GO:0061635: regulation of protein complex stability0.00E+00
7GO:0042821: pyridoxal biosynthetic process0.00E+00
8GO:0042820: vitamin B6 catabolic process0.00E+00
9GO:0042371: vitamin K biosynthetic process0.00E+00
10GO:0006399: tRNA metabolic process0.00E+00
11GO:0070125: mitochondrial translational elongation0.00E+00
12GO:0034337: RNA folding0.00E+00
13GO:0006429: leucyl-tRNA aminoacylation0.00E+00
14GO:0002184: cytoplasmic translational termination0.00E+00
15GO:0006412: translation4.70E-15
16GO:0032544: plastid translation5.52E-13
17GO:0015995: chlorophyll biosynthetic process2.89E-12
18GO:0042254: ribosome biogenesis1.23E-10
19GO:0015979: photosynthesis9.49E-10
20GO:0009658: chloroplast organization1.59E-09
21GO:0010027: thylakoid membrane organization1.24E-06
22GO:0009735: response to cytokinin4.83E-06
23GO:1902326: positive regulation of chlorophyll biosynthetic process1.20E-05
24GO:0010275: NAD(P)H dehydrogenase complex assembly1.20E-05
25GO:1901259: chloroplast rRNA processing1.35E-05
26GO:0010206: photosystem II repair5.94E-05
27GO:0000413: protein peptidyl-prolyl isomerization7.74E-05
28GO:0006782: protoporphyrinogen IX biosynthetic process9.96E-05
29GO:0009773: photosynthetic electron transport in photosystem I1.25E-04
30GO:0010207: photosystem II assembly2.20E-04
31GO:0032543: mitochondrial translation2.28E-04
32GO:0045038: protein import into chloroplast thylakoid membrane2.28E-04
33GO:0006636: unsaturated fatty acid biosynthetic process3.01E-04
34GO:0042549: photosystem II stabilization3.22E-04
35GO:0042372: phylloquinone biosynthetic process4.29E-04
36GO:0046901: tetrahydrofolylpolyglutamate biosynthetic process5.23E-04
37GO:0000476: maturation of 4.5S rRNA5.23E-04
38GO:0009443: pyridoxal 5'-phosphate salvage5.23E-04
39GO:0000967: rRNA 5'-end processing5.23E-04
40GO:0043489: RNA stabilization5.23E-04
41GO:0097056: selenocysteinyl-tRNA(Sec) biosynthetic process5.23E-04
42GO:1904966: positive regulation of vitamin E biosynthetic process5.23E-04
43GO:0071370: cellular response to gibberellin stimulus5.23E-04
44GO:0000481: maturation of 5S rRNA5.23E-04
45GO:1904964: positive regulation of phytol biosynthetic process5.23E-04
46GO:1902458: positive regulation of stomatal opening5.23E-04
47GO:0010729: positive regulation of hydrogen peroxide biosynthetic process5.23E-04
48GO:0006434: seryl-tRNA aminoacylation5.23E-04
49GO:0042255: ribosome assembly6.85E-04
50GO:0009793: embryo development ending in seed dormancy7.19E-04
51GO:0009657: plastid organization8.35E-04
52GO:0071482: cellular response to light stimulus8.35E-04
53GO:0006783: heme biosynthetic process9.97E-04
54GO:0018026: peptidyl-lysine monomethylation1.13E-03
55GO:0034755: iron ion transmembrane transport1.13E-03
56GO:1904143: positive regulation of carotenoid biosynthetic process1.13E-03
57GO:1903426: regulation of reactive oxygen species biosynthetic process1.13E-03
58GO:0034470: ncRNA processing1.13E-03
59GO:0043039: tRNA aminoacylation1.13E-03
60GO:0010205: photoinhibition1.17E-03
61GO:0006779: porphyrin-containing compound biosynthetic process1.17E-03
62GO:0032502: developmental process1.20E-03
63GO:0019684: photosynthesis, light reaction1.58E-03
64GO:0009073: aromatic amino acid family biosynthetic process1.58E-03
65GO:0006352: DNA-templated transcription, initiation1.58E-03
66GO:0006954: inflammatory response1.84E-03
67GO:0006518: peptide metabolic process1.84E-03
68GO:0006617: SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition1.84E-03
69GO:0045493: xylan catabolic process1.84E-03
70GO:0005977: glycogen metabolic process1.84E-03
71GO:0006011: UDP-glucose metabolic process1.84E-03
72GO:0009767: photosynthetic electron transport chain2.06E-03
73GO:0090351: seedling development2.61E-03
74GO:0006241: CTP biosynthetic process2.67E-03
75GO:0080170: hydrogen peroxide transmembrane transport2.67E-03
76GO:0006424: glutamyl-tRNA aminoacylation2.67E-03
77GO:0006165: nucleoside diphosphate phosphorylation2.67E-03
78GO:0006228: UTP biosynthetic process2.67E-03
79GO:0016556: mRNA modification2.67E-03
80GO:2001141: regulation of RNA biosynthetic process2.67E-03
81GO:1902476: chloride transmembrane transport2.67E-03
82GO:0009409: response to cold2.79E-03
83GO:0019344: cysteine biosynthetic process3.23E-03
84GO:2000122: negative regulation of stomatal complex development3.60E-03
85GO:0006183: GTP biosynthetic process3.60E-03
86GO:0030104: water homeostasis3.60E-03
87GO:0015994: chlorophyll metabolic process3.60E-03
88GO:0071483: cellular response to blue light3.60E-03
89GO:0010037: response to carbon dioxide3.60E-03
90GO:0006808: regulation of nitrogen utilization3.60E-03
91GO:0015976: carbon utilization3.60E-03
92GO:0006457: protein folding3.78E-03
93GO:0061077: chaperone-mediated protein folding3.93E-03
94GO:0009790: embryo development4.03E-03
95GO:0006730: one-carbon metabolic process4.30E-03
96GO:0009247: glycolipid biosynthetic process4.62E-03
97GO:0034052: positive regulation of plant-type hypersensitive response4.62E-03
98GO:0006564: L-serine biosynthetic process4.62E-03
99GO:0010236: plastoquinone biosynthetic process4.62E-03
100GO:0016123: xanthophyll biosynthetic process4.62E-03
101GO:0010114: response to red light4.65E-03
102GO:0009306: protein secretion5.11E-03
103GO:0006655: phosphatidylglycerol biosynthetic process5.73E-03
104GO:0042793: transcription from plastid promoter5.73E-03
105GO:0016554: cytidine to uridine editing5.73E-03
106GO:0010190: cytochrome b6f complex assembly5.73E-03
107GO:0009117: nucleotide metabolic process5.73E-03
108GO:0032973: amino acid export5.73E-03
109GO:0000741: karyogamy5.73E-03
110GO:0010942: positive regulation of cell death5.73E-03
111GO:0009741: response to brassinosteroid6.46E-03
112GO:0000462: maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)6.91E-03
113GO:0006458: 'de novo' protein folding6.91E-03
114GO:0042026: protein refolding6.91E-03
115GO:0010555: response to mannitol6.91E-03
116GO:0000079: regulation of cyclin-dependent protein serine/threonine kinase activity6.91E-03
117GO:0009955: adaxial/abaxial pattern specification6.91E-03
118GO:0006821: chloride transport8.18E-03
119GO:0006614: SRP-dependent cotranslational protein targeting to membrane8.18E-03
120GO:0010444: guard mother cell differentiation8.18E-03
121GO:0050829: defense response to Gram-negative bacterium8.18E-03
122GO:0009395: phospholipid catabolic process8.18E-03
123GO:0009772: photosynthetic electron transport in photosystem II8.18E-03
124GO:0043090: amino acid import8.18E-03
125GO:0010439: regulation of glucosinolate biosynthetic process9.53E-03
126GO:0009642: response to light intensity9.53E-03
127GO:0043068: positive regulation of programmed cell death9.53E-03
128GO:0006605: protein targeting9.53E-03
129GO:0019375: galactolipid biosynthetic process9.53E-03
130GO:0006353: DNA-templated transcription, termination9.53E-03
131GO:0032508: DNA duplex unwinding9.53E-03
132GO:2000070: regulation of response to water deprivation9.53E-03
133GO:0010492: maintenance of shoot apical meristem identity9.53E-03
134GO:0052543: callose deposition in cell wall9.53E-03
135GO:0048564: photosystem I assembly9.53E-03
136GO:0017004: cytochrome complex assembly1.10E-02
137GO:0009821: alkaloid biosynthetic process1.24E-02
138GO:0080144: amino acid homeostasis1.24E-02
139GO:0048507: meristem development1.24E-02
140GO:0009051: pentose-phosphate shunt, oxidative branch1.24E-02
141GO:0055114: oxidation-reduction process1.35E-02
142GO:1900865: chloroplast RNA modification1.40E-02
143GO:0018298: protein-chromophore linkage1.52E-02
144GO:0006535: cysteine biosynthetic process from serine1.56E-02
145GO:0009089: lysine biosynthetic process via diaminopimelate1.73E-02
146GO:0043085: positive regulation of catalytic activity1.73E-02
147GO:0006879: cellular iron ion homeostasis1.73E-02
148GO:0006415: translational termination1.73E-02
149GO:0018119: peptidyl-cysteine S-nitrosylation1.73E-02
150GO:0015706: nitrate transport1.91E-02
151GO:0016024: CDP-diacylglycerol biosynthetic process1.91E-02
152GO:0045037: protein import into chloroplast stroma1.91E-02
153GO:0045087: innate immune response1.93E-02
154GO:0009637: response to blue light1.93E-02
155GO:0034599: cellular response to oxidative stress2.02E-02
156GO:0010628: positive regulation of gene expression2.09E-02
157GO:0006006: glucose metabolic process2.09E-02
158GO:0050826: response to freezing2.09E-02
159GO:0006508: proteolysis2.16E-02
160GO:0030001: metal ion transport2.20E-02
161GO:0009451: RNA modification2.21E-02
162GO:0006810: transport2.23E-02
163GO:0010167: response to nitrate2.47E-02
164GO:0005985: sucrose metabolic process2.47E-02
165GO:0046686: response to cadmium ion2.52E-02
166GO:0042742: defense response to bacterium2.62E-02
167GO:0000027: ribosomal large subunit assembly2.88E-02
168GO:0006418: tRNA aminoacylation for protein translation3.09E-02
169GO:0009768: photosynthesis, light harvesting in photosystem I3.09E-02
170GO:0031408: oxylipin biosynthetic process3.30E-02
171GO:0019915: lipid storage3.30E-02
172GO:0051603: proteolysis involved in cellular protein catabolic process3.48E-02
173GO:0009814: defense response, incompatible interaction3.52E-02
174GO:0016226: iron-sulfur cluster assembly3.52E-02
175GO:0007005: mitochondrion organization3.52E-02
176GO:0009411: response to UV3.75E-02
177GO:0006012: galactose metabolic process3.75E-02
178GO:0016117: carotenoid biosynthetic process4.21E-02
179GO:0080022: primary root development4.45E-02
180GO:0008033: tRNA processing4.45E-02
181GO:0034220: ion transmembrane transport4.45E-02
182GO:0006662: glycerol ether metabolic process4.69E-02
183GO:0010197: polar nucleus fusion4.69E-02
184GO:0006396: RNA processing4.91E-02
185GO:0006814: sodium ion transport4.94E-02
186GO:0009646: response to absence of light4.94E-02
RankGO TermAdjusted P value
1GO:0047513: 1,2-alpha-L-fucosidase activity0.00E+00
2GO:0061634: alpha-D-xyloside xylohydrolase0.00E+00
3GO:0050236: pyridoxine:NADP 4-dehydrogenase activity0.00E+00
4GO:0009979: 16:0 monogalactosyldiacylglycerol desaturase activity0.00E+00
5GO:0051744: 3,8-divinyl protochlorophyllide a 8-vinyl reductase activity0.00E+00
6GO:0046428: 1,4-dihydroxy-2-naphthoate octaprenyltransferase activity0.00E+00
7GO:0080176: xyloglucan 1,6-alpha-xylosidase activity0.00E+00
8GO:0004823: leucine-tRNA ligase activity0.00E+00
9GO:0008756: o-succinylbenzoate-CoA ligase activity0.00E+00
10GO:0008935: 1,4-dihydroxy-2-naphthoyl-CoA synthase activity0.00E+00
11GO:0008942: nitrite reductase [NAD(P)H] activity0.00E+00
12GO:0005048: signal sequence binding0.00E+00
13GO:0009974: zeinoxanthin epsilon hydroxylase activity0.00E+00
14GO:0033728: divinyl chlorophyllide a 8-vinyl-reductase activity0.00E+00
15GO:0046406: magnesium protoporphyrin IX methyltransferase activity0.00E+00
16GO:0019843: rRNA binding2.71E-33
17GO:0003735: structural constituent of ribosome9.16E-19
18GO:0003755: peptidyl-prolyl cis-trans isomerase activity3.81E-09
19GO:0016851: magnesium chelatase activity6.62E-07
20GO:0004326: tetrahydrofolylpolyglutamate synthase activity1.20E-05
21GO:0016987: sigma factor activity1.49E-04
22GO:0001053: plastid sigma factor activity1.49E-04
23GO:0008266: poly(U) RNA binding2.20E-04
24GO:0003723: RNA binding3.36E-04
25GO:0005528: FK506 binding3.47E-04
26GO:0045156: electron transporter, transferring electrons within the cyclic electron transport pathway of photosynthesis activity4.29E-04
27GO:0051920: peroxiredoxin activity4.29E-04
28GO:0050567: glutaminyl-tRNA synthase (glutamine-hydrolyzing) activity5.23E-04
29GO:0004828: serine-tRNA ligase activity5.23E-04
30GO:0004655: porphobilinogen synthase activity5.23E-04
31GO:0009671: nitrate:proton symporter activity5.23E-04
32GO:0004853: uroporphyrinogen decarboxylase activity5.23E-04
33GO:0045485: omega-6 fatty acid desaturase activity5.23E-04
34GO:0004729: oxygen-dependent protoporphyrinogen oxidase activity5.23E-04
35GO:0003727: single-stranded RNA binding6.30E-04
36GO:0004033: aldo-keto reductase (NADP) activity6.85E-04
37GO:0016209: antioxidant activity6.85E-04
38GO: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 water8.35E-04
39GO:0016630: protochlorophyllide reductase activity1.13E-03
40GO:0008839: 4-hydroxy-tetrahydrodipicolinate reductase1.13E-03
41GO:0047746: chlorophyllase activity1.13E-03
42GO:0042389: omega-3 fatty acid desaturase activity1.13E-03
43GO:0009977: proton motive force dependent protein transmembrane transporter activity1.13E-03
44GO:0004617: phosphoglycerate dehydrogenase activity1.13E-03
45GO:0046509: 1,2-diacylglycerol 3-beta-galactosyltransferase activity1.13E-03
46GO:0003729: mRNA binding1.33E-03
47GO:0017150: tRNA dihydrouridine synthase activity1.84E-03
48GO:0002161: aminoacyl-tRNA editing activity1.84E-03
49GO:0004148: dihydrolipoyl dehydrogenase activity1.84E-03
50GO:0003983: UTP:glucose-1-phosphate uridylyltransferase activity1.84E-03
51GO:0070402: NADPH binding1.84E-03
52GO:0031072: heat shock protein binding2.06E-03
53GO:0035529: NADH pyrophosphatase activity2.67E-03
54GO:0035250: UDP-galactosyltransferase activity2.67E-03
55GO:0016149: translation release factor activity, codon specific2.67E-03
56GO:0004550: nucleoside diphosphate kinase activity2.67E-03
57GO:0043023: ribosomal large subunit binding2.67E-03
58GO:0008097: 5S rRNA binding2.67E-03
59GO:0008508: bile acid:sodium symporter activity2.67E-03
60GO:0004222: metalloendopeptidase activity2.81E-03
61GO:0009044: xylan 1,4-beta-xylosidase activity3.60E-03
62GO:0004607: phosphatidylcholine-sterol O-acyltransferase activity3.60E-03
63GO:0005253: anion channel activity3.60E-03
64GO:0043495: protein anchor3.60E-03
65GO:0003841: 1-acylglycerol-3-phosphate O-acyltransferase activity3.60E-03
66GO:0046556: alpha-L-arabinofuranosidase activity3.60E-03
67GO:0004659: prenyltransferase activity3.60E-03
68GO:0016279: protein-lysine N-methyltransferase activity3.60E-03
69GO:0004345: glucose-6-phosphate dehydrogenase activity3.60E-03
70GO:0003959: NADPH dehydrogenase activity4.62E-03
71GO:0016773: phosphotransferase activity, alcohol group as acceptor4.62E-03
72GO:0008374: O-acyltransferase activity4.62E-03
73GO:0003756: protein disulfide isomerase activity5.11E-03
74GO:0016208: AMP binding5.73E-03
75GO:0004130: cytochrome-c peroxidase activity5.73E-03
76GO:0016462: pyrophosphatase activity5.73E-03
77GO:0005247: voltage-gated chloride channel activity5.73E-03
78GO:0004124: cysteine synthase activity6.91E-03
79GO:0003690: double-stranded DNA binding7.13E-03
80GO:0019899: enzyme binding8.18E-03
81GO:0005509: calcium ion binding8.36E-03
82GO:0004034: aldose 1-epimerase activity9.53E-03
83GO:0004564: beta-fructofuranosidase activity9.53E-03
84GO:0008312: 7S RNA binding9.53E-03
85GO:0008237: metallopeptidase activity1.03E-02
86GO:0051082: unfolded protein binding1.07E-02
87GO:0016597: amino acid binding1.10E-02
88GO:0016168: chlorophyll binding1.23E-02
89GO:0009815: 1-aminocyclopropane-1-carboxylate oxidase activity1.24E-02
90GO:0003747: translation release factor activity1.24E-02
91GO:0004575: sucrose alpha-glucosidase activity1.40E-02
92GO:0005381: iron ion transmembrane transporter activity1.40E-02
93GO:0016844: strictosidine synthase activity1.40E-02
94GO:0015112: nitrate transmembrane transporter activity1.40E-02
95GO:0008236: serine-type peptidase activity1.45E-02
96GO:0008047: enzyme activator activity1.56E-02
97GO:0004252: serine-type endopeptidase activity1.63E-02
98GO:0044183: protein binding involved in protein folding1.73E-02
99GO:0016491: oxidoreductase activity1.78E-02
100GO:0003993: acid phosphatase activity2.02E-02
101GO:0004022: alcohol dehydrogenase (NAD) activity2.09E-02
102GO:0004089: carbonate dehydratase activity2.09E-02
103GO:0042973: glucan endo-1,3-beta-D-glucosidase activity2.28E-02
104GO:0008146: sulfotransferase activity2.47E-02
105GO:0004185: serine-type carboxypeptidase activity2.50E-02
106GO:0031409: pigment binding2.67E-02
107GO:0051537: 2 iron, 2 sulfur cluster binding2.70E-02
108GO:0004519: endonuclease activity2.84E-02
109GO:0051536: iron-sulfur cluster binding2.88E-02
110GO:0043424: protein histidine kinase binding3.09E-02
111GO:0004176: ATP-dependent peptidase activity3.30E-02
112GO:0003899: DNA-directed 5'-3' RNA polymerase activity3.36E-02
113GO:0004601: peroxidase activity3.71E-02
114GO:0030570: pectate lyase activity3.75E-02
115GO:0022891: substrate-specific transmembrane transporter activity3.75E-02
116GO:0016788: hydrolase activity, acting on ester bonds3.79E-02
117GO:0047134: protein-disulfide reductase activity4.21E-02
118GO:0004812: aminoacyl-tRNA ligase activity4.21E-02
119GO:0008080: N-acetyltransferase activity4.69E-02
120GO:0010181: FMN binding4.94E-02
121GO:0004791: thioredoxin-disulfide reductase activity4.94E-02
122GO:0016853: isomerase activity4.94E-02
RankGO TermAdjusted P value
1GO:0005943: phosphatidylinositol 3-kinase complex, class IA0.00E+00
2GO:0044391: ribosomal subunit0.00E+00
3GO:0009344: nitrite reductase complex [NAD(P)H]0.00E+00
4GO:0009507: chloroplast2.53E-103
5GO:0009570: chloroplast stroma1.08E-55
6GO:0009941: chloroplast envelope9.80E-53
7GO:0009535: chloroplast thylakoid membrane1.69E-38
8GO:0009579: thylakoid4.30E-30
9GO:0009534: chloroplast thylakoid5.06E-30
10GO:0009543: chloroplast thylakoid lumen3.93E-28
11GO:0031977: thylakoid lumen5.91E-19
12GO:0005840: ribosome4.86E-18
13GO:0009654: photosystem II oxygen evolving complex4.79E-10
14GO:0019898: extrinsic component of membrane9.26E-09
15GO:0031969: chloroplast membrane6.51E-08
16GO:0010007: magnesium chelatase complex1.39E-07
17GO:0000311: plastid large ribosomal subunit6.26E-06
18GO:0030095: chloroplast photosystem II1.10E-05
19GO:0009295: nucleoid1.70E-05
20GO:0009533: chloroplast stromal thylakoid2.11E-05
21GO:0010598: NAD(P)H dehydrogenase complex (plastoquinone)5.94E-05
22GO:0009706: chloroplast inner membrane7.18E-05
23GO:0009536: plastid7.52E-05
24GO:0009508: plastid chromosome1.85E-04
25GO:0000312: plastid small ribosomal subunit2.20E-04
26GO:0015934: large ribosomal subunit4.90E-04
27GO:0043674: columella5.23E-04
28GO:0030956: glutamyl-tRNA(Gln) amidotransferase complex5.23E-04
29GO:0009547: plastid ribosome5.23E-04
30GO:0042170: plastid membrane1.13E-03
31GO:0080085: signal recognition particle, chloroplast targeting1.13E-03
32GO:0000427: plastid-encoded plastid RNA polymerase complex1.13E-03
33GO:0032040: small-subunit processome1.81E-03
34GO:0033281: TAT protein transport complex1.84E-03
35GO:0009509: chromoplast1.84E-03
36GO:0005775: vacuolar lumen2.67E-03
37GO:0042646: plastid nucleoid2.67E-03
38GO:0042651: thylakoid membrane3.57E-03
39GO:0015935: small ribosomal subunit3.93E-03
40GO:0034707: chloride channel complex5.73E-03
41GO:0016020: membrane6.64E-03
42GO:0016363: nuclear matrix6.91E-03
43GO:0009522: photosystem I6.96E-03
44GO:0009523: photosystem II7.47E-03
45GO:0042807: central vacuole8.18E-03
46GO:0005786: signal recognition particle, endoplasmic reticulum targeting1.10E-02
47GO:0030529: intracellular ribonucleoprotein complex1.16E-02
48GO:0005763: mitochondrial small ribosomal subunit1.24E-02
49GO:0022626: cytosolic ribosome1.89E-02
50GO:0019013: viral nucleocapsid2.09E-02
51GO:0030076: light-harvesting complex2.47E-02
52GO:0022627: cytosolic small ribosomal subunit3.05E-02
53GO:0009505: plant-type cell wall3.97E-02
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Gene type



Gene DE type