4.0:Information of module
cop1 Seedling Dark
In comparison with CCA1-ox 6am non-polysomal help
Scatter plot of seleted modules.
Trend of Up regulated genes including module
GOID Term Ontology p-value
GO:0015979 photosynthesis BP 5.526e-83
GO:0019684 photosynthesis, light reaction BP 4.929e-75
GO:0006091 generation of precursor metabolites and ... BP 7.092e-61
･･･ ･･･ ･･･ ･･･
View Hierarchical networks of GOs (      )
Trend of Down regulated genes including module
GOID Term Ontology p-value
GO:0042221 response to chemical BP 1.792e-07
GO:0008152 metabolic process BP 2.941e-07
GO:0050896 response to stimulus BP 4.029e-07
･･･ ･･･ ･･･ ･･･
View Hierarchical networks of GOs (      )
List of genes in module
･･･up requlated genes  ･･･down regulated genes
probeID AGICode Annotation Log2 signal ratio
cop1 Seedling Dark		 Log2 signal ratio
CCA1-ox 6am non-polysomal
1 264636_at AT1G65490 unknown 1.311 -0.202
2 256497_at AT1G31580 CXC750, ECS1 1.178 -0.047
3 245025_at ATCG00130 ATPF 1.094 0.048
4 244934_at ATCG01080 NDHG 1.045 0.337
5 244933_at ATCG01070 NDHE 1.041 0.130
6 256796_at AT3G22210 unknown 0.982 0.085
7 244972_at ATCG00680 PSBB, photosystem II reaction center protein B 0.948 0.032
8 245448_at AT4G16860 RPP4, recognition of peronospora parasitica 4 0.944 -0.070
9 266279_at AT2G29290 [NAD(P)-binding Rossmann-fold superfamily protein] 0.907 -0.082
10 266277_at AT2G29310 [NAD(P)-binding Rossmann-fold superfamily protein] 0.902 -0.022
11 244966_at ATCG00600 PETG 0.893 0.181
12 265611_at AT2G25510 unknown 0.893 0.007
13 248062_at AT5G55450 [Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein] 0.874 0.064
14 248683_at AT5G48490 [Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein] 0.874 0.236
15 245049_at ATCG00050 RPS16, ribosomal protein S16 0.870 0.090
16 249876_at AT5G23060 CaS, calcium sensing receptor 0.821 -0.052
17 263410_at AT2G04039 unknown 0.819 -0.015
18 265699_at AT2G03550 [alpha/beta-Hydrolases superfamily protein] 0.818 -0.050
19 245026_at ATCG00140 ATPH 0.796 0.007
20 245017_at ATCG00510 PSAI, photsystem I subunit I 0.793 -0.009
21 263034_at AT1G24020 MLP423, MLP-like protein 423 0.789 -0.010
22 255852_at AT1G66970 GDPDL1, Glycerophosphodiester phosphodiesterase (GDPD) like 1, SVL2, SHV3-like 2 0.770 0.008
23 254794_at AT4G12970 EPFL9, STOMAGEN, STOMAGEN 0.764 0.028
24 248839_at AT5G46690 bHLH071, beta HLH protein 71 0.753 -0.034
25 255046_at AT4G09650 ATPD, ATP synthase delta-subunit gene, PDE332, PIGMENT DEFECTIVE 332 0.737 -0.101
26 252463_at AT3G47070 [LOCATED IN: thylakoid, chloroplast thylakoid membrane, chloroplast, chloroplast envelope] 0.735 0.004
27 245024_at ATCG00120 ATPA, ATP synthase subunit alpha 0.726 0.064
28 245002_at ATCG00270 PSBD, photosystem II reaction center protein D 0.725 0.065
29 254384_at AT4G21870 [HSP20-like chaperones superfamily protein] 0.724 0.028
30 262288_at AT1G70760 CRR23, CHLORORESPIRATORY REDUCTION 23, NdhL, NADH dehydrogenase-like complex L 0.719 -0.058
31 258897_at AT3G05730 [LOCATED IN: endomembrane system] 0.714 -0.056
32 266979_at AT2G39470 PnsL1, Photosynthetic NDH subcomplex L 1, PPL2, PsbP-like protein 2 0.712 0.061
33 264442_at AT1G27480 [alpha/beta-Hydrolases superfamily protein] 0.704 0.011
34 262612_at AT1G14150 PnsL2, Photosynthetic NDH subcomplex L 2, PQL1, PsbQ-like 1, PQL2, PsbQ-like 2 0.699 -0.201
35 261913_at AT1G65860 FMO GS-OX1, flavin-monooxygenase glucosinolate S-oxygenase 1 0.692 0.048
36 264201_at AT1G22630 unknown 0.691 0.163
37 260696_at AT1G32520 unknown 0.687 0.167
38 245505_at AT4G15690 [Thioredoxin superfamily protein] 0.680 0.124
39 260004_at AT1G67860 unknown 0.679 -0.520
40 257635_at AT3G26280 CYP71B4, cytochrome P450, family 71, subfamily B, polypeptide 4 0.679 -0.045
41 245008_at ATCG00360 YCF3 0.670 0.143
42 260546_at AT2G43520 ATTI2, trypsin inhibitor protein 2, TI2, trypsin inhibitor protein 2 0.660 -0.150
43 257966_at AT3G19800 unknown 0.655 0.002
44 262680_at AT1G75880 [SGNH hydrolase-type esterase superfamily protein] 0.641 -0.132
45 261958_at AT1G64500 [Glutaredoxin family protein] 0.641 -0.082
46 247899_at AT5G57345 unknown 0.638 0.023
47 264435_at AT1G10360 ATGSTU18, glutathione S-transferase TAU 18, GST29, GLUTATHIONE S-TRANSFERASE 29, GSTU18, glutathione S-transferase TAU 18 0.635 -0.028
48 264195_at AT1G22690 [Gibberellin-regulated family protein] 0.634 -0.008
49 256969_at AT3G21080 [ABC transporter-related] 0.626 0.183
50 249775_at AT5G24160 SQE6, squalene monoxygenase 6 0.621 -0.023
51 255807_at AT4G10270 [Wound-responsive family protein] 0.619 -0.027
52 244998_at ATCG00180 RPOC1 0.616 0.197
53 267555_at AT2G32765 ATSUMO5, SUM5, SUMO 5, SUMO5, small ubiquitinrelated modifier 5 0.616 -0.084
54 249645_at AT5G36910 THI2.2, thionin 2.2 0.609 -0.112
55 264037_at AT2G03750 [P-loop containing nucleoside triphosphate hydrolases superfamily protein] 0.608 -0.133
56 244996_at ATCG00160 RPS2, ribosomal protein S2 0.595 0.073
57 251221_at AT3G62550 [Adenine nucleotide alpha hydrolases-like superfamily protein] 0.594 0.474
58 256336_at AT1G72030 [Acyl-CoA N-acyltransferases (NAT) superfamily protein] 0.581 -0.047
59 252876_at AT4G39970 [Haloacid dehalogenase-like hydrolase (HAD) superfamily protein] 0.581 0.200
60 259625_at AT1G42970 GAPB, glyceraldehyde-3-phosphate dehydrogenase B subunit 0.579 0.244
61 247362_at AT5G63140 ATPAP29, purple acid phosphatase 29, PAP29, PAP29, purple acid phosphatase 29 0.576 -0.051
62 260368_at AT1G69700 ATHVA22C, HVA22 homologue C, HVA22C, HVA22 homologue C 0.575 -0.095
63 260012_at AT1G67865 unknown 0.573 -0.049
64 253966_at AT4G26520 AtFBA7, FBA7, fructose-bisphosphate aldolase 7 0.570 -0.103
65 262543_at AT1G34245 EPF2, EPIDERMAL PATTERNING FACTOR 2 0.570 0.066
66 259773_at AT1G29500 SAUR66, SMALL AUXIN UPREGULATED RNA 66 0.566 0.101
67 245050_at ATCG00070 PSBK, photosystem II reaction center protein K precursor 0.564 0.065
68 245003_at ATCG00280 PSBC, photosystem II reaction center protein C 0.561 0.102
69 249932_at AT5G22390 unknown 0.558 -0.238
70 264016_at AT2G21220 SAUR12, SMALL AUXIN UPREGULATED RNA 12 0.557 0.412
71 253943_at AT4G27030 FAD4, FATTY ACID DESATURASE 4, FADA, fatty acid desaturase A 0.551 -0.057
72 255298_at AT4G04840 ATMSRB6, methionine sulfoxide reductase B6, MSRB6, methionine sulfoxide reductase B6 0.551 -0.005
73 265569_at AT2G05620 AtPGR5, PGR5, proton gradient regulation 5 0.549 -0.004
74 252946_at AT4G39235 unknown 0.547 -0.018
75 248623_at AT5G49170 unknown 0.544 0.040
76 252965_at AT4G38860 SAUR16, SMALL AUXIN UPREGULATED RNA 16 0.543 0.091
77 260312_at AT1G63880 [Disease resistance protein (TIR-NBS-LRR class) family] 0.540 -0.163
78 245006_at ATCG00340 PSAB 0.540 0.626
79 262970_at AT1G75690 LQY1, LOW QUANTUM YIELD OF PHOTOSYSTEM II 1 0.537 0.007
80 254687_at AT4G13770 CYP83A1, cytochrome P450, family 83, subfamily A, polypeptide 1, REF2, REDUCED EPIDERMAL FLUORESCENCE 2 0.537 0.112
81 245592_at AT4G14540 NF-YB3, nuclear factor Y, subunit B3 0.534 -0.114
82 260968_at AT1G12250 [Pentapeptide repeat-containing protein] 0.528 -0.227
83 251031_at AT5G02120 OHP, one helix protein, PDE335, PIGMENT DEFECTIVE 335 0.524 0.021
84 257954_at AT3G21760 HYR1, HYPOSTATIN RESISTANCE 1 0.524 -0.181
85 250563_at AT5G08050 unknown 0.523 0.093
86 250207_at AT5G13930 ATCHS, CHS, CHALCONE SYNTHASE, TT4, TRANSPARENT TESTA 4 0.522 -0.158
87 255331_at AT4G04330 AtRbcX1, RbcX1, homologue of cyanobacterial RbcX 1 0.520 0.111
88 250073_at AT5G17170 ENH1, enhancer of sos3-1 0.518 -0.024
89 260877_at AT1G21500 unknown 0.514 -0.051
90 260542_at AT2G43560 [FKBP-like peptidyl-prolyl cis-trans isomerase family protein] 0.514 0.079
91 251826_at AT3G55110 ABCG18, ATP-binding cassette G18 0.511 -0.009
92 251885_at AT3G54050 HCEF1, high cyclic electron flow 1 0.506 0.163
93 259460_at AT1G44000 unknown 0.505 -0.080
94 253627_at AT4G30650 [Low temperature and salt responsive protein family] 0.503 -0.146
95 251784_at AT3G55330 PPL1, PsbP-like protein 1 0.500 0.112
96 253790_at AT4G28660 PSB28, photosystem II reaction center PSB28 protein 0.499 0.003
97 254505_at AT4G19985 [Acyl-CoA N-acyltransferases (NAT) superfamily protein] 0.498 -0.049
98 258087_at AT3G26060 ATPRX Q, PRXQ, peroxiredoxin Q 0.496 0.092
99 249996_at AT5G18600 [Thioredoxin superfamily protein] 0.495 -0.236
100 260704_at AT1G32470 [Single hybrid motif superfamily protein] 0.492 -0.081
101 247853_at AT5G58140 NPL1, NON PHOTOTROPIC HYPOCOTYL 1-LIKE, PHOT2, phototropin 2 0.491 -0.007
102 251157_at AT3G63140 CSP41A, chloroplast stem-loop binding protein of 41 kDa 0.491 0.017
103 257163_at AT3G24310 ATMYB71, MYB DOMAIN PROTEIN 71, MYB305, myb domain protein 305 -0.810 0.069
104 259653_at AT1G55240 unknown -0.780 0.000
105 250031_at AT5G18240 ATMYR1, ARABIDOPSIS MYB-RELATED PROTEIN 1, MYR1, myb-related protein 1 -0.627 0.037
106 266309_at AT2G27140 [HSP20-like chaperones superfamily protein] -0.619 -0.089
107 245258_at AT4G15340 04C11, ATPEN1, pentacyclic triterpene synthase 1, PEN1, pentacyclic triterpene synthase 1 -0.594 -0.132
108 250302_at AT5G11920 AtcwINV6, 6-&1-fructan exohydrolase, cwINV6, 6-&1-fructan exohydrolase -0.496 0.045
109 264404_at AT2G25160 CYP82F1, cytochrome P450, family 82, subfamily F, polypeptide 1 -0.477 -0.025
110 265119_at AT1G62570 FMO GS-OX4, flavin-monooxygenase glucosinolate S-oxygenase 4 -0.476 0.109
111 263402_at AT2G04050 [MATE efflux family protein] -0.473 0.091
112 266327_at AT2G46680 ATHB-7, homeobox 7, ATHB7, ARABIDOPSIS THALIANA HOMEOBOX 7, HB-7, homeobox 7 -0.457 -0.060
113 248254_at AT5G53320 [Leucine-rich repeat protein kinase family protein] -0.447 0.118
114 246825_at AT5G26260 [TRAF-like family protein] -0.446 -0.024
115 262671_at AT1G76040 CPK29, calcium-dependent protein kinase 29 -0.431 -0.157
116 259897_at AT1G71380 ATCEL3, cellulase 3, ATGH9B3, ARABIDOPSIS THALIANA GLYCOSYL HYDROLASE 9B3, CEL3, cellulase 3 -0.429 -0.059
117 255150_at AT4G08160 [glycosyl hydrolase family 10 protein / carbohydrate-binding domain-containing protein] -0.413 -0.068
118 261224_at AT1G20160 ATSBT5.2 -0.411 -0.031
119 246093_at AT5G20550 [2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily protein] -0.403 -0.012
120 267311_at AT2G34670 unknown -0.402 0.052
121 251298_at AT3G62040 [Haloacid dehalogenase-like hydrolase (HAD) superfamily protein] -0.398 -0.102
122 246536_at AT5G15920 EMB2782, EMBRYO DEFECTIVE 2782, SMC5, structural maintenance of chromosomes 5 -0.397 -0.031
123 265359_at AT2G16720 ATMYB7, ARABIDOPSIS THALIANA MYB DOMAIN PROTEIN 7, ATY49, MYB7, myb domain protein 7 -0.392 -0.002
124 251035_at AT5G02220 SMR4, SIAMESE-RELATED 4 -0.390 -0.036
125 248736_at AT5G48110 [Terpenoid cyclases/Protein prenyltransferases superfamily protein] -0.389 -0.027
126 266752_at AT2G47000 ABCB4, ATP-binding cassette B4, AtABCB4, ATPGP4, ARABIDOPSIS P-GLYCOPROTEIN 4, MDR4, MULTIDRUG RESISTANCE 4, PGP4, P-GLYCOPROTEIN 4 -0.387 -0.075
127 262795_at AT1G13130 [Cellulase (glycosyl hydrolase family 5) protein] -0.386 -0.022
128 250603_at AT5G07820 [Plant calmodulin-binding protein-related] -0.375 0.129
129 261991_at AT1G33700 [Beta-glucosidase, GBA2 type family protein] -0.374 0.085
130 253842_at AT4G27860 MEB1, MEMBRANE OF ER BODY 1 -0.374 -0.139
131 249045_at AT5G44380 [FAD-binding Berberine family protein] -0.370 -0.044
132 254632_at AT4G18630 unknown -0.365 -0.027
133 260097_at AT1G73220 AtOCT1, organic cation/carnitine transporter1, OCT1, organic cation/carnitine transporter1 -0.365 -0.140
134 245436_at AT4G16620 UMAMIT8, Usually multiple acids move in and out Transporters 8 -0.362 -0.079
135 251478_at AT3G59690 IQD13, IQ-domain 13 -0.361 0.071
136 250756_at AT5G05940 ATROPGEF5, ROP GUANINE NUCLEOTIDE EXCHANGE FACTOR 5, ROPGEF5, ROP (rho of plants) guanine nucleotide exchange factor 5 -0.360 -0.056
137 262873_at AT1G64700 unknown -0.359 0.043
138 261031_at AT1G17360 unknown -0.356 0.121
139 259297_at AT3G05360 AtRLP30, receptor like protein 30, RLP30, receptor like protein 30 -0.355 0.156
140 253977_at AT4G26630 [DEK domain-containing chromatin associated protein] -0.355 0.061
141 266688_at AT2G19660 [Cysteine/Histidine-rich C1 domain family protein] -0.351 0.007
142 248150_at AT5G54670 ATK3, kinesin 3, KATC, KINESIN-LIKE PROTEIN IN ARABIDOPSIS THALIANA C -0.348 0.112
143 245864_at AT1G58070 unknown -0.345 -0.158
144 263629_at AT2G04850 [Auxin-responsive family protein] -0.334 0.138
145 261491_at AT1G14350 AtMYB124, myb domain protein 124, FLP, FOUR LIPS, MYB124 -0.332 0.244
146 262454_at AT1G11190 BFN1, bifunctional nuclease i, ENDO1, ENDONUCLEASE 1 -0.330 0.009
147 261500_at AT1G28400 unknown -0.330 -0.070
148 245970_at AT5G20710 BGAL7, beta-galactosidase 7 -0.327 -0.213
149 252319_at AT3G48710 [DEK domain-containing chromatin associated protein] -0.325 0.080
150 258037_at AT3G21230 4CL5, 4-coumarate:CoA ligase 5 -0.323 -0.031
151 248731_at AT5G48060 [C2 calcium/lipid-binding plant phosphoribosyltransferase family protein] -0.323 -0.027
152 262930_at AT1G65690 [Late embryogenesis abundant (LEA) hydroxyproline-rich glycoprotein family] -0.322 0.082
153 261879_at AT1G50520 CYP705A27, cytochrome P450, family 705, subfamily A, polypeptide 27 -0.319 0.116
154 247668_at AT5G60100 APRR3, pseudo-response regulator 3, PRR3, pseudo-response regulator 3 -0.319 0.118
155 253458_at AT4G32070 Phox4, Phox4 -0.319 -0.039
156 251668_at AT3G57010 [Calcium-dependent phosphotriesterase superfamily protein] -0.315 0.078
157 248070_at AT5G55660 [DEK domain-containing chromatin associated protein] -0.315 0.040
158 257978_at AT3G20860 ATNEK5, NIMA-related kinase 5, NEK5, NIMA-related kinase 5 -0.314 -0.100
159 255007_at AT4G10020 AtHSD5, hydroxysteroid dehydrogenase 5, HSD5, hydroxysteroid dehydrogenase 5 -0.313 -0.106
160 257534_at AT3G09670 [Tudor/PWWP/MBT superfamily protein] -0.307 0.063
161 252958_at AT4G38620 ATMYB4, myb domain protein 4, MYB4, myb domain protein 4 -0.304 -0.068
162 265083_at AT1G03820 unknown -0.302 -0.088
163 255614_at AT4G01280 [Homeodomain-like superfamily protein] -0.300 -0.099
164 249378_at AT5G40450 unknown -0.295 -0.215
165 249308_at AT5G41350 [RING/U-box superfamily protein] -0.295 -0.087
166 255127_at AT4G08300 UMAMIT17, Usually multiple acids move in and out Transporters 17 -0.294 0.089
167 251967_at AT3G53390 [Transducin/WD40 repeat-like superfamily protein] -0.293 0.036
168 253500_at AT4G31920 ARR10, response regulator 10, RR10, response regulator 10 -0.291 -0.004
169 249939_at AT5G22430 [Pollen Ole e 1 allergen and extensin family protein] -0.290 0.022
170 265728_at AT2G31990 [Exostosin family protein] -0.287 0.196
171 264941_at AT1G60680 [NAD(P)-linked oxidoreductase superfamily protein] -0.286 0.226
172 267488_at AT2G19110 ATHMA4, ARABIDOPSIS HEAVY METAL ATPASE 4, HMA4, heavy metal atpase 4 -0.284 0.104
173 259367_at AT1G69070 unknown -0.283 -0.120
174 258836_at AT3G07210 unknown -0.282 -0.132
175 246995_at AT5G67470 ATFH6, ARABIDOPSIS FORMIN HOMOLOG 6, FH6, formin homolog 6 -0.280 0.081
176 245302_at AT4G17695 KAN3, KANADI 3 -0.279 -0.213
177 247755_at AT5G59090 ATSBT4.12, subtilase 4.12, SBT4.12, subtilase 4.12 -0.275 0.042
178 246826_at AT5G26310 UGT72E3 -0.274 0.069
179 250820_at AT5G05160 RUL1, REDUCED IN LATERAL GROWTH1 -0.273 0.110
180 251061_at AT5G01830 SAUR21, SMALL AUXIN UP RNA 21 -0.272 -0.010
181 263253_at AT2G31370 [Basic-leucine zipper (bZIP) transcription factor family protein] -0.271 -0.048
182 261436_at AT1G07870 [Protein kinase superfamily protein] -0.271 -0.002
183 267467_at AT2G30580 BMI1A, DRIP2, DREB2A-interacting protein 2 -0.270 -0.015
184 257896_at AT3G16920 ATCTL2, CTL2, chitinase-like protein 2 -0.269 -0.052
185 264527_at AT1G30760 [FAD-binding Berberine family protein] -0.268 -0.079
186 257217_at AT3G14940 ATPPC3, phosphoenolpyruvate carboxylase 3, PPC3, phosphoenolpyruvate carboxylase 3 -0.266 -0.067
187 250103_at AT5G16600 AtMYB43, myb domain protein 43, MYB43, myb domain protein 43 -0.265 0.002
188 255149_at AT4G08150 BP, BREVIPEDICELLUS, BP1, BREVIPEDICELLUS 1, KNAT1, KNOTTED-like from Arabidopsis thaliana -0.265 -0.070
189 250666_at AT5G07100 WRKY26, WRKY DNA-binding protein 26 -0.264 0.009
190 252488_at AT3G46700 [UDP-Glycosyltransferase superfamily protein] -0.264 0.040
191 247312_at AT5G63970 RGLG3, RING DOMAIN LIGASE 3 -0.263 -0.056
192 258828_at AT3G07130 ATPAP15, PURPLE ACID PHOSPHATASE 15, PAP15, purple acid phosphatase 15 -0.260 0.058
193 252667_at AT3G44200 ATNEK6, NIMA-RELATED KINASE6, IBO1, NEK6, NIMA (never in mitosis, gene A)-related 6 -0.260 0.051
194 246858_at AT5G25930 [Protein kinase family protein with leucine-rich repeat domain] -0.259 0.003
195 251477_at AT3G59680 unknown -0.258 0.104
196 252770_at AT3G42860 [zinc knuckle (CCHC-type) family protein] -0.257 0.002
197 257467_at AT1G31320 LBD4, LOB domain-containing protein 4 -0.256 0.094
198 253263_at AT4G34000 ABF3, abscisic acid responsive elements-binding factor 3, AtABF3, DPBF5, DC3 PROMOTER-BINDING FACTOR 5 -0.255 -0.289
199 266795_at AT2G03070 MED8, mediator subunit 8 -0.253 -0.069
200 257766_at AT3G23030 IAA2, indole-3-acetic acid inducible 2 -0.252 -0.035
201 248998_at AT5G45320 unknown -0.249 -0.128
202 254964_at AT4G11080 3xHMG-box1, 3xHigh Mobility Group-box1 -0.248 -0.131
203 253483_at AT4G31910 BAT1, BR-related AcylTransferase1, PIZ, PIZZA -0.245 -0.112