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

AT3G54830

GO-BP
GO-MF
GO-CC
RankGO TermAdjusted P value
1GO:0032194: ubiquinone biosynthetic process via 3,4-dihydroxy-5-polyprenylbenzoate0.00E+00
2GO:0018131: oxazole or thiazole biosynthetic process0.00E+00
3GO:0010059: positive regulation of atrichoblast fate specification0.00E+00
4GO:1903224: regulation of endodermal cell differentiation0.00E+00
5GO:0045184: establishment of protein localization0.00E+00
6GO:0006399: tRNA metabolic process0.00E+00
7GO:0042793: transcription from plastid promoter4.86E-11
8GO:0009658: chloroplast organization8.31E-09
9GO:0009451: RNA modification3.45E-07
10GO:0009790: embryo development3.04E-05
11GO:0009793: embryo development ending in seed dormancy5.08E-05
12GO:0042026: protein refolding2.07E-04
13GO:0048437: floral organ development2.70E-04
14GO:0034757: negative regulation of iron ion transport3.24E-04
15GO:0006419: alanyl-tRNA aminoacylation3.24E-04
16GO:0006427: histidyl-tRNA aminoacylation3.24E-04
17GO:0042659: regulation of cell fate specification3.24E-04
18GO:0019294: keto-3-deoxy-D-manno-octulosonic acid biosynthetic process3.24E-04
19GO:0072684: mitochondrial tRNA 3'-trailer cleavage, endonucleolytic3.24E-04
20GO:0070509: calcium ion import3.24E-04
21GO:0005980: glycogen catabolic process3.24E-04
22GO:0090558: plant epidermis development3.24E-04
23GO:0010063: positive regulation of trichoblast fate specification3.24E-04
24GO:0010480: microsporocyte differentiation3.24E-04
25GO:0042371: vitamin K biosynthetic process3.24E-04
26GO:0035987: endodermal cell differentiation3.24E-04
27GO:0006436: tryptophanyl-tRNA aminoacylation3.24E-04
28GO:0009657: plastid organization4.17E-04
29GO:0010583: response to cyclopentenone4.91E-04
30GO:0000373: Group II intron splicing5.01E-04
31GO:0009828: plant-type cell wall loosening5.77E-04
32GO:0045036: protein targeting to chloroplast6.91E-04
33GO:0006420: arginyl-tRNA aminoacylation7.07E-04
34GO:0060359: response to ammonium ion7.07E-04
35GO:0048255: mRNA stabilization7.07E-04
36GO:1902326: positive regulation of chlorophyll biosynthetic process7.07E-04
37GO:0010569: regulation of double-strand break repair via homologous recombination7.07E-04
38GO:0010271: regulation of chlorophyll catabolic process7.07E-04
39GO:0018026: peptidyl-lysine monomethylation7.07E-04
40GO:0009662: etioplast organization7.07E-04
41GO:0042325: regulation of phosphorylation7.07E-04
42GO:0009220: pyrimidine ribonucleotide biosynthetic process7.07E-04
43GO:1904143: positive regulation of carotenoid biosynthetic process7.07E-04
44GO:0080009: mRNA methylation7.07E-04
45GO:0010027: thylakoid membrane organization7.22E-04
46GO:0045037: protein import into chloroplast stroma9.08E-04
47GO:0000160: phosphorelay signal transduction system1.07E-03
48GO:0007169: transmembrane receptor protein tyrosine kinase signaling pathway1.14E-03
49GO:0090708: specification of plant organ axis polarity1.15E-03
50GO:0080117: secondary growth1.15E-03
51GO:0042780: tRNA 3'-end processing1.15E-03
52GO:0001578: microtubule bundle formation1.15E-03
53GO:0043157: response to cation stress1.15E-03
54GO:0005977: glycogen metabolic process1.15E-03
55GO:0034414: tRNA 3'-trailer cleavage, endonucleolytic1.15E-03
56GO:0006508: proteolysis1.31E-03
57GO:0051085: chaperone mediated protein folding requiring cofactor1.65E-03
58GO:0010239: chloroplast mRNA processing1.65E-03
59GO:0010306: rhamnogalacturonan II biosynthetic process1.65E-03
60GO:0019048: modulation by virus of host morphology or physiology1.65E-03
61GO:0046739: transport of virus in multicellular host1.65E-03
62GO:0031048: chromatin silencing by small RNA1.65E-03
63GO:0051289: protein homotetramerization1.65E-03
64GO:2001141: regulation of RNA biosynthetic process1.65E-03
65GO:0010071: root meristem specification1.65E-03
66GO:0006418: tRNA aminoacylation for protein translation1.76E-03
67GO:0006306: DNA methylation1.93E-03
68GO:0007005: mitochondrion organization2.11E-03
69GO:0051322: anaphase2.21E-03
70GO:0030104: water homeostasis2.21E-03
71GO:0006221: pyrimidine nucleotide biosynthetic process2.21E-03
72GO:0046656: folic acid biosynthetic process2.21E-03
73GO:0006021: inositol biosynthetic process2.21E-03
74GO:0051567: histone H3-K9 methylation2.21E-03
75GO:0044205: 'de novo' UMP biosynthetic process2.21E-03
76GO:0010021: amylopectin biosynthetic process2.21E-03
77GO:0006479: protein methylation2.21E-03
78GO:0009664: plant-type cell wall organization2.49E-03
79GO:0009736: cytokinin-activated signaling pathway2.73E-03
80GO:0010236: plastoquinone biosynthetic process2.82E-03
81GO:0048868: pollen tube development3.16E-03
82GO:0006342: chromatin silencing3.16E-03
83GO:0009959: negative gravitropism3.49E-03
84GO:0006655: phosphatidylglycerol biosynthetic process3.49E-03
85GO:0016554: cytidine to uridine editing3.49E-03
86GO:0048831: regulation of shoot system development3.49E-03
87GO:0006086: acetyl-CoA biosynthetic process from pyruvate3.49E-03
88GO:0009228: thiamine biosynthetic process3.49E-03
89GO:0016458: gene silencing3.49E-03
90GO:2000067: regulation of root morphogenesis4.20E-03
91GO:0009955: adaxial/abaxial pattern specification4.20E-03
92GO:0042372: phylloquinone biosynthetic process4.20E-03
93GO:0006458: 'de novo' protein folding4.20E-03
94GO:0009942: longitudinal axis specification4.20E-03
95GO:0048509: regulation of meristem development4.20E-03
96GO:1901259: chloroplast rRNA processing4.20E-03
97GO:0046654: tetrahydrofolate biosynthetic process4.20E-03
98GO:0030488: tRNA methylation4.20E-03
99GO:0048528: post-embryonic root development4.95E-03
100GO:0009772: photosynthetic electron transport in photosystem II4.95E-03
101GO:0010444: guard mother cell differentiation4.95E-03
102GO:0009396: folic acid-containing compound biosynthetic process4.95E-03
103GO:0006400: tRNA modification4.95E-03
104GO:0006207: 'de novo' pyrimidine nucleobase biosynthetic process4.95E-03
105GO:0006955: immune response4.95E-03
106GO:0048564: photosystem I assembly5.76E-03
107GO:0006353: DNA-templated transcription, termination5.76E-03
108GO:0055075: potassium ion homeostasis5.76E-03
109GO:0000105: histidine biosynthetic process5.76E-03
110GO:0009416: response to light stimulus5.83E-03
111GO:0071482: cellular response to light stimulus6.60E-03
112GO:0010497: plasmodesmata-mediated intercellular transport6.60E-03
113GO:0007389: pattern specification process6.60E-03
114GO:0010411: xyloglucan metabolic process6.63E-03
115GO:0048481: plant ovule development7.35E-03
116GO:0006098: pentose-phosphate shunt7.48E-03
117GO:0000902: cell morphogenesis7.48E-03
118GO:0009098: leucine biosynthetic process8.41E-03
119GO:2000280: regulation of root development8.41E-03
120GO:1900865: chloroplast RNA modification8.41E-03
121GO:0009862: systemic acquired resistance, salicylic acid mediated signaling pathway8.41E-03
122GO:0031425: chloroplast RNA processing8.41E-03
123GO:0006535: cysteine biosynthetic process from serine9.37E-03
124GO:0030422: production of siRNA involved in RNA interference9.37E-03
125GO:0006949: syncytium formation9.37E-03
126GO:0006259: DNA metabolic process9.37E-03
127GO:0006265: DNA topological change1.04E-02
128GO:0009089: lysine biosynthetic process via diaminopimelate1.04E-02
129GO:0006352: DNA-templated transcription, initiation1.04E-02
130GO:0016485: protein processing1.04E-02
131GO:0048229: gametophyte development1.04E-02
132GO:0006790: sulfur compound metabolic process1.14E-02
133GO:0016024: CDP-diacylglycerol biosynthetic process1.14E-02
134GO:0010114: response to red light1.21E-02
135GO:0009691: cytokinin biosynthetic process1.25E-02
136GO:0050826: response to freezing1.25E-02
137GO:0010075: regulation of meristem growth1.25E-02
138GO:0006094: gluconeogenesis1.25E-02
139GO:0042546: cell wall biogenesis1.26E-02
140GO:0010207: photosystem II assembly1.36E-02
141GO:0010020: chloroplast fission1.36E-02
142GO:0009934: regulation of meristem structural organization1.36E-02
143GO:0009826: unidimensional cell growth1.43E-02
144GO:0070588: calcium ion transmembrane transport1.48E-02
145GO:0046854: phosphatidylinositol phosphorylation1.48E-02
146GO:0006833: water transport1.60E-02
147GO:0051603: proteolysis involved in cellular protein catabolic process1.69E-02
148GO:0019344: cysteine biosynthetic process1.72E-02
149GO:0009116: nucleoside metabolic process1.72E-02
150GO:0051302: regulation of cell division1.84E-02
151GO:0019953: sexual reproduction1.84E-02
152GO:0006096: glycolytic process1.93E-02
153GO:0061077: chaperone-mediated protein folding1.97E-02
154GO:0031408: oxylipin biosynthetic process1.97E-02
155GO:0016998: cell wall macromolecule catabolic process1.97E-02
156GO:0015992: proton transport1.97E-02
157GO:0048316: seed development1.99E-02
158GO:0048367: shoot system development1.99E-02
159GO:0009831: plant-type cell wall modification involved in multidimensional cell growth2.23E-02
160GO:0010082: regulation of root meristem growth2.23E-02
161GO:0071215: cellular response to abscisic acid stimulus2.23E-02
162GO:0042127: regulation of cell proliferation2.37E-02
163GO:0009306: protein secretion2.37E-02
164GO:0009742: brassinosteroid mediated signaling pathway2.46E-02
165GO:0070417: cellular response to cold2.51E-02
166GO:0048653: anther development2.65E-02
167GO:0000226: microtubule cytoskeleton organization2.65E-02
168GO:0008033: tRNA processing2.65E-02
169GO:0010087: phloem or xylem histogenesis2.65E-02
170GO:0006662: glycerol ether metabolic process2.80E-02
171GO:0010305: leaf vascular tissue pattern formation2.80E-02
172GO:0009741: response to brassinosteroid2.80E-02
173GO:0009646: response to absence of light2.95E-02
174GO:0048544: recognition of pollen2.95E-02
175GO:0007059: chromosome segregation2.95E-02
176GO:0019252: starch biosynthetic process3.10E-02
177GO:0008654: phospholipid biosynthetic process3.10E-02
178GO:0009851: auxin biosynthetic process3.10E-02
179GO:0000302: response to reactive oxygen species3.25E-02
180GO:0009409: response to cold3.28E-02
181GO:0031047: gene silencing by RNA3.41E-02
182GO:0032502: developmental process3.41E-02
183GO:0009630: gravitropism3.41E-02
184GO:0010252: auxin homeostasis3.73E-02
185GO:0071805: potassium ion transmembrane transport3.89E-02
186GO:0051607: defense response to virus4.06E-02
187GO:0000910: cytokinesis4.06E-02
188GO:0001666: response to hypoxia4.23E-02
189GO:0010029: regulation of seed germination4.40E-02
190GO:0009816: defense response to bacterium, incompatible interaction4.40E-02
191GO:0006974: cellular response to DNA damage stimulus4.57E-02
192GO:0007166: cell surface receptor signaling pathway4.57E-02
193GO:0009627: systemic acquired resistance4.57E-02
RankGO TermAdjusted P value
1GO:0004588: orotate phosphoribosyltransferase activity0.00E+00
2GO:0004590: orotidine-5'-phosphate decarboxylase activity0.00E+00
3GO:0046428: 1,4-dihydroxy-2-naphthoate octaprenyltransferase activity0.00E+00
4GO:0004401: histidinol-phosphatase activity0.00E+00
5GO:0004056: argininosuccinate lyase activity0.00E+00
6GO:0070009: serine-type aminopeptidase activity0.00E+00
7GO:0052834: inositol monophosphate phosphatase activity0.00E+00
8GO:0003723: RNA binding1.36E-06
9GO:0004519: endonuclease activity2.37E-06
10GO:0008237: metallopeptidase activity2.83E-06
11GO:0004176: ATP-dependent peptidase activity7.83E-06
12GO:0016773: phosphotransferase activity, alcohol group as acceptor1.05E-04
13GO:0004222: metalloendopeptidase activity1.39E-04
14GO:0005227: calcium activated cation channel activity3.24E-04
15GO:0008184: glycogen phosphorylase activity3.24E-04
16GO:0042834: peptidoglycan binding3.24E-04
17GO:0008676: 3-deoxy-8-phosphooctulonate synthase activity3.24E-04
18GO:0004645: phosphorylase activity3.24E-04
19GO:0016422: mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity3.24E-04
20GO:0016274: protein-arginine N-methyltransferase activity3.24E-04
21GO:0004156: dihydropteroate synthase activity3.24E-04
22GO:0003848: 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase activity3.24E-04
23GO:0004821: histidine-tRNA ligase activity3.24E-04
24GO:0004813: alanine-tRNA ligase activity3.24E-04
25GO:0052906: tRNA (guanine(37)-N(1))-methyltransferase activity3.24E-04
26GO:0052381: tRNA dimethylallyltransferase activity3.24E-04
27GO:0030785: [ribulose-bisphosphate carboxylase]-lysine N-methyltransferase activity3.24E-04
28GO:0004830: tryptophan-tRNA ligase activity3.24E-04
29GO:0010285: L,L-diaminopimelate aminotransferase activity3.24E-04
30GO:0010347: L-galactose-1-phosphate phosphatase activity3.24E-04
31GO:0052832: inositol monophosphate 3-phosphatase activity7.07E-04
32GO:0008934: inositol monophosphate 1-phosphatase activity7.07E-04
33GO:0019156: isoamylase activity7.07E-04
34GO:0052833: inositol monophosphate 4-phosphatase activity7.07E-04
35GO:0000179: rRNA (adenine-N6,N6-)-dimethyltransferase activity7.07E-04
36GO:0003988: acetyl-CoA C-acyltransferase activity7.07E-04
37GO:0009884: cytokinin receptor activity7.07E-04
38GO:0003852: 2-isopropylmalate synthase activity7.07E-04
39GO:0004814: arginine-tRNA ligase activity7.07E-04
40GO:0044183: protein binding involved in protein folding7.96E-04
41GO:0046524: sucrose-phosphate synthase activity1.15E-03
42GO:0070330: aromatase activity1.15E-03
43GO:0017150: tRNA dihydrouridine synthase activity1.15E-03
44GO:0042781: 3'-tRNA processing endoribonuclease activity1.15E-03
45GO:0005034: osmosensor activity1.15E-03
46GO:0005525: GTP binding1.31E-03
47GO:0005524: ATP binding1.41E-03
48GO:0004742: dihydrolipoyllysine-residue acetyltransferase activity1.65E-03
49GO:0009678: hydrogen-translocating pyrophosphatase activity1.65E-03
50GO:0009041: uridylate kinase activity1.65E-03
51GO:0035197: siRNA binding1.65E-03
52GO:0001872: (1->3)-beta-D-glucan binding1.65E-03
53GO:0016987: sigma factor activity2.21E-03
54GO:0004930: G-protein coupled receptor activity2.21E-03
55GO:0004659: prenyltransferase activity2.21E-03
56GO:0016279: protein-lysine N-methyltransferase activity2.21E-03
57GO:0001053: plastid sigma factor activity2.21E-03
58GO:0004812: aminoacyl-tRNA ligase activity2.71E-03
59GO:0004888: transmembrane signaling receptor activity2.82E-03
60GO:0018685: alkane 1-monooxygenase activity2.82E-03
61GO:0070696: transmembrane receptor protein serine/threonine kinase binding2.82E-03
62GO:0004332: fructose-bisphosphate aldolase activity3.49E-03
63GO:0004556: alpha-amylase activity3.49E-03
64GO:0004605: phosphatidate cytidylyltransferase activity3.49E-03
65GO:0016762: xyloglucan:xyloglucosyl transferase activity3.89E-03
66GO:0008195: phosphatidate phosphatase activity4.20E-03
67GO:0008441: 3'(2'),5'-bisphosphate nucleotidase activity4.20E-03
68GO:0019900: kinase binding4.20E-03
69GO:0004124: cysteine synthase activity4.20E-03
70GO:0000156: phosphorelay response regulator activity4.44E-03
71GO:0004427: inorganic diphosphatase activity4.95E-03
72GO:0016597: amino acid binding5.32E-03
73GO:0008173: RNA methyltransferase activity6.60E-03
74GO:0003918: DNA topoisomerase type II (ATP-hydrolyzing) activity6.60E-03
75GO:0016798: hydrolase activity, acting on glycosyl bonds6.63E-03
76GO:0015450: P-P-bond-hydrolysis-driven protein transmembrane transporter activity7.35E-03
77GO:0009672: auxin:proton symporter activity8.41E-03
78GO:0003924: GTPase activity8.48E-03
79GO:0004673: protein histidine kinase activity9.37E-03
80GO:0004553: hydrolase activity, hydrolyzing O-glycosyl compounds9.46E-03
81GO:0004521: endoribonuclease activity1.14E-02
82GO:0000049: tRNA binding1.14E-02
83GO:0042802: identical protein binding1.17E-02
84GO:0004185: serine-type carboxypeptidase activity1.21E-02
85GO:0019888: protein phosphatase regulator activity1.25E-02
86GO:0004565: beta-galactosidase activity1.25E-02
87GO:0010329: auxin efflux transmembrane transporter activity1.25E-02
88GO:0000155: phosphorelay sensor kinase activity1.25E-02
89GO:0005262: calcium channel activity1.25E-02
90GO:0016887: ATPase activity1.64E-02
91GO:0043424: protein histidine kinase binding1.84E-02
92GO:0005345: purine nucleobase transmembrane transporter activity1.84E-02
93GO:0015079: potassium ion transmembrane transporter activity1.84E-02
94GO:0033612: receptor serine/threonine kinase binding1.97E-02
95GO:0003964: RNA-directed DNA polymerase activity1.97E-02
96GO:0008408: 3'-5' exonuclease activity1.97E-02
97GO:0051082: unfolded protein binding2.32E-02
98GO:0047134: protein-disulfide reductase activity2.51E-02
99GO:0004527: exonuclease activity2.80E-02
100GO:0003713: transcription coactivator activity2.80E-02
101GO:0019843: rRNA binding2.91E-02
102GO:0004791: thioredoxin-disulfide reductase activity2.95E-02
103GO:0019901: protein kinase binding3.10E-02
104GO:0030170: pyridoxal phosphate binding3.23E-02
105GO:0005507: copper ion binding3.39E-02
106GO:0016671: oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor3.57E-02
107GO:0004675: transmembrane receptor protein serine/threonine kinase activity3.74E-02
108GO:0008483: transaminase activity3.89E-02
109GO:0016722: oxidoreductase activity, oxidizing metal ions3.89E-02
110GO:0004702: signal transducer, downstream of receptor, with serine/threonine kinase activity3.89E-02
111GO:0008017: microtubule binding4.19E-02
112GO:0030247: polysaccharide binding4.75E-02
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Gene type



Gene DE type