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

AT3G04940

GO-BP
GO-MF
GO-CC
RankGO TermAdjusted P value
1GO:0070272: proton-transporting ATP synthase complex biogenesis0.00E+00
2GO:0051503: adenine nucleotide transport0.00E+00
3GO:0006437: tyrosyl-tRNA aminoacylation0.00E+00
4GO:0006671: phytosphingosine metabolic process0.00E+00
5GO:0010270: photosystem II oxygen evolving complex assembly9.95E-07
6GO:0009773: photosynthetic electron transport in photosystem I2.49E-04
7GO:0006695: cholesterol biosynthetic process3.25E-04
8GO:0006650: glycerophospholipid metabolic process3.25E-04
9GO:1900111: positive regulation of histone H3-K9 dimethylation3.25E-04
10GO:0048587: regulation of short-day photoperiodism, flowering3.25E-04
11GO:0043039: tRNA aminoacylation3.25E-04
12GO:0006810: transport3.36E-04
13GO:0010581: regulation of starch biosynthetic process5.33E-04
14GO:0032922: circadian regulation of gene expression5.33E-04
15GO:0006696: ergosterol biosynthetic process5.33E-04
16GO:0006760: folic acid-containing compound metabolic process5.33E-04
17GO:0046902: regulation of mitochondrial membrane permeability7.63E-04
18GO:0009855: determination of bilateral symmetry7.63E-04
19GO:0010258: NADH dehydrogenase complex (plastoquinone) assembly7.63E-04
20GO:0016117: carotenoid biosynthetic process8.61E-04
21GO:0006085: acetyl-CoA biosynthetic process1.01E-03
22GO:2000122: negative regulation of stomatal complex development1.01E-03
23GO:0006546: glycine catabolic process1.01E-03
24GO:0046656: folic acid biosynthetic process1.01E-03
25GO:0010037: response to carbon dioxide1.01E-03
26GO:0015976: carbon utilization1.01E-03
27GO:0009247: glycolipid biosynthetic process1.28E-03
28GO:0010236: plastoquinone biosynthetic process1.28E-03
29GO:0010583: response to cyclopentenone1.30E-03
30GO:0006555: methionine metabolic process1.57E-03
31GO:0010358: leaf shaping1.57E-03
32GO:0016554: cytidine to uridine editing1.57E-03
33GO:0006828: manganese ion transport1.57E-03
34GO:0010190: cytochrome b6f complex assembly1.57E-03
35GO:0042549: photosystem II stabilization1.57E-03
36GO:0009955: adaxial/abaxial pattern specification1.88E-03
37GO:0080060: integument development1.88E-03
38GO:0010014: meristem initiation1.88E-03
39GO:0046654: tetrahydrofolate biosynthetic process1.88E-03
40GO:0009854: oxidative photosynthetic carbon pathway1.88E-03
41GO:0007205: protein kinase C-activating G-protein coupled receptor signaling pathway2.21E-03
42GO:0009645: response to low light intensity stimulus2.21E-03
43GO:0007155: cell adhesion2.56E-03
44GO:0009690: cytokinin metabolic process2.56E-03
45GO:0019375: galactolipid biosynthetic process2.56E-03
46GO:0045010: actin nucleation2.56E-03
47GO:0010119: regulation of stomatal movement2.61E-03
48GO:0009657: plastid organization2.93E-03
49GO:0019430: removal of superoxide radicals2.93E-03
50GO:0009932: cell tip growth2.93E-03
51GO:0006098: pentose-phosphate shunt3.31E-03
52GO:0045337: farnesyl diphosphate biosynthetic process3.31E-03
53GO:0033384: geranyl diphosphate biosynthetic process3.31E-03
54GO:0000902: cell morphogenesis3.31E-03
55GO:0035999: tetrahydrofolate interconversion3.71E-03
56GO:1900865: chloroplast RNA modification3.71E-03
57GO:0010380: regulation of chlorophyll biosynthetic process3.71E-03
58GO:0042761: very long-chain fatty acid biosynthetic process3.71E-03
59GO:0016573: histone acetylation3.71E-03
60GO:0043069: negative regulation of programmed cell death4.12E-03
61GO:0009409: response to cold4.20E-03
62GO:0007169: transmembrane receptor protein tyrosine kinase signaling pathway4.53E-03
63GO:0006816: calcium ion transport4.55E-03
64GO:0006415: translational termination4.55E-03
65GO:0019684: photosynthesis, light reaction4.55E-03
66GO:0010072: primary shoot apical meristem specification4.55E-03
67GO:0009089: lysine biosynthetic process via diaminopimelate4.55E-03
68GO:0043085: positive regulation of catalytic activity4.55E-03
69GO:0018119: peptidyl-cysteine S-nitrosylation4.55E-03
70GO:0000038: very long-chain fatty acid metabolic process4.55E-03
71GO:0006790: sulfur compound metabolic process4.99E-03
72GO:0015979: photosynthesis5.13E-03
73GO:0006094: gluconeogenesis5.45E-03
74GO:0009767: photosynthetic electron transport chain5.45E-03
75GO:0006096: glycolytic process5.85E-03
76GO:0010020: chloroplast fission5.92E-03
77GO:0019253: reductive pentose-phosphate cycle5.92E-03
78GO:0010207: photosystem II assembly5.92E-03
79GO:0046854: phosphatidylinositol phosphorylation6.41E-03
80GO:0010025: wax biosynthetic process6.91E-03
81GO:0006338: chromatin remodeling7.42E-03
82GO:0009944: polarity specification of adaxial/abaxial axis7.42E-03
83GO:0006418: tRNA aminoacylation for protein translation7.95E-03
84GO:0007017: microtubule-based process7.95E-03
85GO:0009768: photosynthesis, light harvesting in photosystem I7.95E-03
86GO:0061077: chaperone-mediated protein folding8.49E-03
87GO:0006730: one-carbon metabolic process9.05E-03
88GO:0080092: regulation of pollen tube growth9.05E-03
89GO:0006633: fatty acid biosynthetic process1.11E-02
90GO:0000226: microtubule cytoskeleton organization1.14E-02
91GO:0042335: cuticle development1.14E-02
92GO:0000271: polysaccharide biosynthetic process1.14E-02
93GO:0045489: pectin biosynthetic process1.20E-02
94GO:0009741: response to brassinosteroid1.20E-02
95GO:0010268: brassinosteroid homeostasis1.20E-02
96GO:0008654: phospholipid biosynthetic process1.33E-02
97GO:0016132: brassinosteroid biosynthetic process1.39E-02
98GO:0007264: small GTPase mediated signal transduction1.46E-02
99GO:0032502: developmental process1.46E-02
100GO:0009416: response to light stimulus1.47E-02
101GO:0010090: trichome morphogenesis1.53E-02
102GO:0016125: sterol metabolic process1.60E-02
103GO:0016126: sterol biosynthetic process1.81E-02
104GO:0001666: response to hypoxia1.81E-02
105GO:0010027: thylakoid membrane organization1.81E-02
106GO:0042128: nitrate assimilation1.96E-02
107GO:0009860: pollen tube growth2.04E-02
108GO:0009817: defense response to fungus, incompatible interaction2.19E-02
109GO:0018298: protein-chromophore linkage2.19E-02
110GO:0009853: photorespiration2.59E-02
111GO:0009867: jasmonic acid mediated signaling pathway2.59E-02
112GO:0016051: carbohydrate biosynthetic process2.59E-02
113GO:0006631: fatty acid metabolic process2.93E-02
114GO:0009644: response to high light intensity3.28E-02
115GO:0048364: root development3.61E-02
116GO:0051603: proteolysis involved in cellular protein catabolic process3.93E-02
117GO:0006417: regulation of translation4.12E-02
118GO:0048316: seed development4.42E-02
119GO:0048367: shoot system development4.42E-02
120GO:0055114: oxidation-reduction process4.93E-02
RankGO TermAdjusted P value
1GO:0046905: phytoene synthase activity0.00E+00
2GO:0008887: glycerate kinase activity0.00E+00
3GO:0050613: delta14-sterol reductase activity0.00E+00
4GO:0008942: nitrite reductase [NAD(P)H] activity0.00E+00
5GO:0016767: geranylgeranyl-diphosphate geranylgeranyltransferase activity0.00E+00
6GO:0009974: zeinoxanthin epsilon hydroxylase activity0.00E+00
7GO:0005528: FK506 binding2.11E-05
8GO:0080132: fatty acid alpha-hydroxylase activity1.42E-04
9GO:0004831: tyrosine-tRNA ligase activity1.42E-04
10GO:0051996: squalene synthase activity1.42E-04
11GO:0004489: methylenetetrahydrofolate reductase (NAD(P)H) activity1.42E-04
12GO:0010012: steroid 22-alpha hydroxylase activity1.42E-04
13GO:0046912: transferase activity, transferring acyl groups, acyl groups converted into alkyl on transfer1.42E-04
14GO:0004150: dihydroneopterin aldolase activity3.25E-04
15GO:0008839: 4-hydroxy-tetrahydrodipicolinate reductase3.25E-04
16GO:0004310: farnesyl-diphosphate farnesyltransferase activity3.25E-04
17GO:0004618: phosphoglycerate kinase activity3.25E-04
18GO:0004047: aminomethyltransferase activity3.25E-04
19GO:0102083: 7,8-dihydromonapterin aldolase activity3.25E-04
20GO:0046509: 1,2-diacylglycerol 3-beta-galactosyltransferase activity3.25E-04
21GO:0031072: heat shock protein binding3.27E-04
22GO:0003755: peptidyl-prolyl cis-trans isomerase activity5.18E-04
23GO:0017050: D-erythro-sphingosine kinase activity5.33E-04
24GO:0003878: ATP citrate synthase activity7.63E-04
25GO:0016628: oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor7.63E-04
26GO:0035250: UDP-galactosyltransferase activity7.63E-04
27GO:0016149: translation release factor activity, codon specific7.63E-04
28GO:0004045: aminoacyl-tRNA hydrolase activity1.01E-03
29GO:0004659: prenyltransferase activity1.01E-03
30GO:0016655: oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor1.01E-03
31GO:0008374: O-acyltransferase activity1.28E-03
32GO:0005471: ATP:ADP antiporter activity1.28E-03
33GO:0004332: fructose-bisphosphate aldolase activity1.57E-03
34GO:0045156: electron transporter, transferring electrons within the cyclic electron transport pathway of photosynthesis activity1.88E-03
35GO:0008441: 3'(2'),5'-bisphosphate nucleotidase activity1.88E-03
36GO:0004143: diacylglycerol kinase activity2.21E-03
37GO:0035064: methylated histone binding2.56E-03
38GO:0003951: NAD+ kinase activity2.93E-03
39GO:0004337: geranyltranstransferase activity3.31E-03
40GO:0003747: translation release factor activity3.31E-03
41GO:0005384: manganese ion transmembrane transporter activity3.71E-03
42GO:0051537: 2 iron, 2 sulfur cluster binding3.98E-03
43GO:0008047: enzyme activator activity4.12E-03
44GO:0005198: structural molecule activity4.13E-03
45GO:0005089: Rho guanyl-nucleotide exchange factor activity4.55E-03
46GO:0004161: dimethylallyltranstransferase activity4.55E-03
47GO:0004089: carbonate dehydratase activity5.45E-03
48GO:0015095: magnesium ion transmembrane transporter activity5.45E-03
49GO:0102336: 3-oxo-arachidoyl-CoA synthase activity6.91E-03
50GO:0102337: 3-oxo-cerotoyl-CoA synthase activity6.91E-03
51GO:0102338: 3-oxo-lignoceronyl-CoA synthase activity6.91E-03
52GO:0031409: pigment binding6.91E-03
53GO:0051082: unfolded protein binding7.04E-03
54GO:0003924: GTPase activity7.11E-03
55GO:0016746: transferase activity, transferring acyl groups7.24E-03
56GO:0004707: MAP kinase activity8.49E-03
57GO:0019706: protein-cysteine S-palmitoyltransferase activity8.49E-03
58GO:0047262: polygalacturonate 4-alpha-galacturonosyltransferase activity9.05E-03
59GO:0003756: protein disulfide isomerase activity1.02E-02
60GO:0004812: aminoacyl-tRNA ligase activity1.08E-02
61GO:0004791: thioredoxin-disulfide reductase activity1.26E-02
62GO:0048038: quinone binding1.39E-02
63GO:0016671: oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor1.53E-02
64GO:0042802: identical protein binding1.55E-02
65GO:0008483: transaminase activity1.67E-02
66GO:0016722: oxidoreductase activity, oxidizing metal ions1.67E-02
67GO:0005200: structural constituent of cytoskeleton1.67E-02
68GO:0016168: chlorophyll binding1.88E-02
69GO:0000982: transcription factor activity, RNA polymerase II core promoter proximal region sequence-specific binding2.11E-02
70GO:0008236: serine-type peptidase activity2.11E-02
71GO:0052689: carboxylic ester hydrolase activity2.59E-02
72GO:0000987: core promoter proximal region sequence-specific DNA binding2.67E-02
73GO:0005525: GTP binding2.76E-02
74GO:0016787: hydrolase activity3.01E-02
75GO:0004185: serine-type carboxypeptidase activity3.10E-02
76GO:0005509: calcium ion binding3.23E-02
77GO:0003824: catalytic activity4.00E-02
78GO:0016747: transferase activity, transferring acyl groups other than amino-acyl groups4.42E-02
79GO:0022857: transmembrane transporter activity4.72E-02
RankGO TermAdjusted P value
1GO:0031224: intrinsic component of membrane0.00E+00
2GO:0009507: chloroplast3.89E-15
3GO:0009535: chloroplast thylakoid membrane6.61E-12
4GO:0009543: chloroplast thylakoid lumen7.14E-10
5GO:0009941: chloroplast envelope1.36E-09
6GO:0010598: NAD(P)H dehydrogenase complex (plastoquinone)2.55E-06
7GO:0009570: chloroplast stroma4.43E-06
8GO:0009654: photosystem II oxygen evolving complex2.49E-05
9GO:0031977: thylakoid lumen2.76E-05
10GO:0009534: chloroplast thylakoid3.08E-05
11GO:0019898: extrinsic component of membrane7.99E-05
12GO:0009782: photosystem I antenna complex1.42E-04
13GO:0009344: nitrite reductase complex [NAD(P)H]1.42E-04
14GO:0009579: thylakoid2.03E-04
15GO:0030095: chloroplast photosystem II3.70E-04
16GO:0031519: PcG protein complex5.33E-04
17GO:0009346: citrate lyase complex7.63E-04
18GO:0031209: SCAR complex1.57E-03
19GO:0000123: histone acetyltransferase complex2.21E-03
20GO:0005677: chromatin silencing complex2.93E-03
21GO:0045298: tubulin complex3.31E-03
22GO:0016324: apical plasma membrane4.12E-03
23GO:0031969: chloroplast membrane4.34E-03
24GO:0009508: plastid chromosome5.45E-03
25GO:0030659: cytoplasmic vesicle membrane5.92E-03
26GO:0030176: integral component of endoplasmic reticulum membrane6.41E-03
27GO:0030076: light-harvesting complex6.41E-03
28GO:0005875: microtubule associated complex6.91E-03
29GO:0042651: thylakoid membrane7.95E-03
30GO:0010287: plastoglobule8.35E-03
31GO:0009532: plastid stroma8.49E-03
32GO:0009523: photosystem II1.33E-02
33GO:0009295: nucleoid1.67E-02
34GO:0005778: peroxisomal membrane1.67E-02
35GO:0010319: stromule1.67E-02
36GO:0030529: intracellular ribonucleoprotein complex1.81E-02
37GO:0005874: microtubule2.27E-02
38GO:0005829: cytosol3.32E-02
39GO:0005856: cytoskeleton3.37E-02
40GO:0005773: vacuole4.33E-02
41GO:0009706: chloroplast inner membrane4.92E-02
Gene type



Gene DE type