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Co-expression Profiling under Salt Stress and different genotypes
Co-expression Modules over selected samples
Module ID Number of genes Enriched GO terms (Term/Q-value/Description) Enriched KEGG pathway (Term/Q-value/Description)
Module #1 166 Details
Molecular Function:
GO:0042393  1.04E-04  histone binding
GO:0015925  4.38E-03  galactosidase activity
Biological Process:
GO:0031497  4.62E-04  chromatin assembly
GO:0006334  4.62E-04  nucleosome assembly
GO:0006333  4.62E-04  chromatin assembly or disassembly
GO:0034728  4.62E-04  nucleosome organization
GO:0065004  5.06E-04  protein-DNA complex assembly
GO:0071824  5.06E-04  protein-DNA complex subunit organization
GO:0006325  1.59E-03  chromatin organization
GO:0006555  9.17E-03  methionine metabolic process
GO:0071103  9.22E-03  DNA conformation change
Cellular Component:
GO:0044815  3.61E-06  DNA packaging complex
GO:0032993  3.61E-06  protein-DNA complex
GO:0000786  3.61E-06  nucleosome
GO:0000788  7.11E-06  nuclear nucleosome
GO:0000785  7.11E-06  chromatin
GO:0044427  1.41E-04  chromosomal part
GO:0000790  1.56E-04  nuclear chromatin
GO:0044391  1.16E-03  ribosomal subunit
GO:0005694  1.30E-03  chromosome
GO:0044454  1.30E-03  nuclear chromosome part
GO:0015935  1.35E-03  small ribosomal subunit
GO:0000228  2.01E-03  nuclear chromosome
GO:0000139  5.93E-03  Golgi membrane
GO:0030126  1.47E-02  COPI vesicle coat
GO:0030137  2.11E-02  COPI-coated vesicle
GO:0030663  2.11E-02  COPI-coated vesicle membrane
GO:0000502  4.78E-02  proteasome complex
GO:0030660  4.78E-02  Golgi-associated vesicle membrane
GO:0044431  4.78E-02  Golgi apparatus part
GO:1905369  4.78E-02  endopeptidase complex
GO:0005798  4.78E-02  Golgi-associated vesicle
GO:0031981  4.87E-02  nuclear lumen
GO:1905368  4.87E-02  peptidase complex
GO:0005794  4.87E-02  Golgi apparatus
Module #2 160 Details
Biological Process:
GO:0044723  7.04E-03  single-organism carbohydrate metabolic process
GO:0009072  3.92E-02  aromatic amino acid family metabolic process
GO:0010167  4.32E-02  response to nitrate
GO:0015706  4.32E-02  nitrate transport
GO:0019362  4.44E-02  pyridine nucleotide metabolic process
GO:0072524  4.72E-02  pyridine-containing compound metabolic process
Module #3 152 Details
Molecular Function:
GO:0042626  5.55E-03  ATPase activity, coupled to transmembrane movement of substances
GO:0016820  5.55E-03  hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances
GO:0015405  5.55E-03  P-P-bond-hydrolysis-driven transmembrane transporter activity
GO:0015399  5.55E-03  primary active transmembrane transporter activity
GO:0050661  1.97E-02  NADP binding
GO:0004420  4.92E-02  hydroxymethylglutaryl-CoA reductase (NADPH) activity
GO:0005199  4.92E-02  structural constituent of cell wall
Biological Process:
GO:0019318  4.49E-02  hexose metabolic process
GO:0044723  4.49E-02  single-organism carbohydrate metabolic process
00010  9.73E-03  Glycolysis / Gluconeogenesis
00940  1.71E-02  Phenylpropanoid biosynthesis
02010  8.29E-02  ABC transporters
Module #4 149 Details
Molecular Function:
GO:0016875  2.04E-13  ligase activity, forming carbon-oxygen bonds
GO:0016876  2.04E-13  ligase activity, forming aminoacyl-tRNA and related compounds
GO:0004812  2.04E-13  aminoacyl-tRNA ligase activity
GO:0000049  8.54E-05  tRNA binding
GO:0016859  8.52E-04  cis-trans isomerase activity
GO:0003755  8.52E-04  peptidyl-prolyl cis-trans isomerase activity
GO:0016853  5.34E-03  isomerase activity
GO:0004148  5.34E-03  dihydrolipoyl dehydrogenase activity
GO:0008238  1.64E-02  exopeptidase activity
GO:0016667  2.22E-02  oxidoreductase activity, acting on a sulfur group of donors
GO:0004040  2.56E-02  amidase activity
GO:0002161  3.42E-02  aminoacyl-tRNA editing activity
Biological Process:
GO:0043038  7.02E-13  amino acid activation
GO:0043039  7.02E-13  tRNA aminoacylation
GO:0034660  2.33E-07  ncRNA metabolic process
GO:0006520  4.56E-07  cellular amino acid metabolic process
GO:0080135  2.55E-02  regulation of cellular response to stress
GO:0006457  3.06E-02  protein folding
Cellular Component:
GO:0044435  3.11E-10  plastid part
GO:0044434  3.11E-10  chloroplast part
GO:0009532  3.11E-10  plastid stroma
GO:0009570  1.26E-09  chloroplast stroma
GO:0009526  4.44E-06  plastid envelope
GO:0009941  4.44E-06  chloroplast envelope
GO:0031976  4.30E-04  plastid thylakoid
GO:0009534  4.30E-04  chloroplast thylakoid
GO:0009579  6.09E-04  thylakoid
GO:0031975  9.27E-04  envelope
GO:0031967  9.27E-04  organelle envelope
GO:0031984  2.38E-03  organelle subcompartment
GO:0044391  2.55E-02  ribosomal subunit
00970  2.33E-11  Aminoacyl-tRNA biosynthesis
03010  4.03E-05  Ribosome
Module #5 139 Details
Cellular Component:
GO:0098803  1.31E-04  respiratory chain complex
GO:0070469  1.52E-03  respiratory chain
GO:0098800  1.52E-03  inner mitochondrial membrane protein complex
GO:0005746  2.76E-03  mitochondrial respiratory chain
GO:0098798  3.53E-03  mitochondrial protein complex
GO:0005740  5.41E-03  mitochondrial envelope
GO:1905369  5.41E-03  endopeptidase complex
GO:0000502  5.41E-03  proteasome complex
GO:0005743  5.87E-03  mitochondrial inner membrane
GO:0044455  5.87E-03  mitochondrial membrane part
GO:1905368  5.87E-03  peptidase complex
GO:0044429  7.72E-03  mitochondrial part
GO:0098796  1.04E-02  membrane protein complex
GO:0019866  1.04E-02  organelle inner membrane
GO:0031966  2.18E-02  mitochondrial membrane
GO:0031967  3.28E-02  organelle envelope
GO:0031975  3.28E-02  envelope
03050  4.30E-02  Proteasome
Module #6 120 Details
Biological Process:
GO:0009735  2.70E-05  response to cytokinin
GO:0019684  2.93E-05  photosynthesis, light reaction
GO:0015979  2.99E-05  photosynthesis
GO:0010207  1.59E-03  photosystem II assembly
GO:0009657  3.42E-03  plastid organization
GO:0006091  6.75E-03  generation of precursor metabolites and energy
GO:0098542  6.75E-03  defense response to other organism
GO:0051707  1.23E-02  response to other organism
GO:0043207  1.26E-02  response to external biotic stimulus
GO:0042742  1.26E-02  defense response to bacterium
GO:0009765  1.37E-02  photosynthesis, light harvesting
GO:0009617  1.63E-02  response to bacterium
GO:0032544  2.33E-02  plastid translation
GO:0009607  3.96E-02  response to biotic stimulus
Cellular Component:
GO:0044434  3.33E-23  chloroplast part
GO:0044435  3.33E-23  plastid part
GO:0009579  1.17E-13  thylakoid
GO:0009941  8.56E-13  chloroplast envelope
GO:0009526  8.89E-13  plastid envelope
GO:0009532  1.57E-12  plastid stroma
GO:0009534  1.07E-11  chloroplast thylakoid
GO:0031976  1.07E-11  plastid thylakoid
GO:0009570  1.37E-11  chloroplast stroma
GO:0031984  4.26E-10  organelle subcompartment
GO:0042651  9.80E-10  thylakoid membrane
GO:0009535  1.11E-09  chloroplast thylakoid membrane
GO:0055035  1.11E-09  plastid thylakoid membrane
GO:0034357  1.96E-09  photosynthetic membrane
GO:0031967  2.60E-09  organelle envelope
GO:0031975  2.60E-09  envelope
GO:0044436  6.27E-09  thylakoid part
GO:0009523  2.46E-04  photosystem II
GO:0031977  2.90E-04  thylakoid lumen
GO:0009521  2.91E-03  photosystem
GO:0098796  2.99E-02  membrane protein complex
GO:0010287  3.46E-02  plastoglobule
GO:0009522  3.82E-02  photosystem I
03010  1.26E-04  Ribosome
00196  6.97E-03  Photosynthesis - antenna proteins
Module #7 119 Details
Molecular Function:
GO:0016774  3.38E-03  phosphotransferase activity, carboxyl group as acceptor
GO:0005200  6.10E-03  structural constituent of cytoskeleton
GO:0016620  2.18E-02  oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
GO:0019202  2.18E-02  amino acid kinase activity
GO:0004014  2.18E-02  adenosylmethionine decarboxylase activity
GO:0016831  2.25E-02  carboxy-lyase activity
GO:0016903  2.41E-02  oxidoreductase activity, acting on the aldehyde or oxo group of donors
00330  2.20E-03  Arginine and proline metabolism
00620  8.16E-03  Pyruvate metabolism
00010  2.97E-02  Glycolysis / Gluconeogenesis
Module #8 117 Details
Cellular Component:
GO:0044434  2.84E-10  chloroplast part
GO:0044435  2.84E-10  plastid part
GO:0009579  6.36E-04  thylakoid
GO:0009941  9.98E-04  chloroplast envelope
GO:0009526  9.98E-04  plastid envelope
GO:0009570  9.98E-04  chloroplast stroma
GO:0009532  1.19E-03  plastid stroma
GO:0042651  1.34E-03  thylakoid membrane
GO:0009535  3.28E-03  chloroplast thylakoid membrane
GO:0055035  3.28E-03  plastid thylakoid membrane
GO:0031976  5.26E-03  plastid thylakoid
GO:0009534  5.26E-03  chloroplast thylakoid
GO:0044436  5.26E-03  thylakoid part
GO:0034357  5.34E-03  photosynthetic membrane
GO:0031967  1.81E-02  organelle envelope
GO:0031984  1.81E-02  organelle subcompartment
GO:0031975  1.81E-02  envelope
Module #9 117 Details
00514  7.33E-02  Other types of O-glycan biosynthesis
Module #10 107 Details
Molecular Function:
GO:0016879  2.64E-02  ligase activity, forming carbon-nitrogen bonds
GO:0004396  2.85E-02  hexokinase activity
GO:0005536  2.85E-02  glucose binding
Biological Process:
GO:0006733  1.64E-03  oxidoreduction coenzyme metabolic process
GO:0019362  1.64E-03  pyridine nucleotide metabolic process
GO:0072524  1.64E-03  pyridine-containing compound metabolic process
GO:0009064  2.52E-02  glutamine family amino acid metabolic process
GO:0006757  3.17E-02  ATP generation from ADP
GO:0006096  3.17E-02  glycolytic process
GO:0019693  3.17E-02  ribose phosphate metabolic process
GO:0009117  3.59E-02  nucleotide metabolic process
GO:0044723  3.59E-02  single-organism carbohydrate metabolic process
GO:0009132  3.59E-02  nucleoside diphosphate metabolic process
GO:0006091  3.59E-02  generation of precursor metabolites and energy
GO:0006753  3.59E-02  nucleoside phosphate metabolic process
GO:1901605  3.59E-02  alpha-amino acid metabolic process
GO:0006732  3.59E-02  coenzyme metabolic process
GO:0044724  3.59E-02  single-organism carbohydrate catabolic process
GO:0001678  3.59E-02  cellular glucose homeostasis
GO:0044712  3.62E-02  single-organism catabolic process
GO:0033500  4.83E-02  carbohydrate homeostasis
Cellular Component:
GO:0012507  4.16E-02  ER to Golgi transport vesicle membrane
GO:0030127  4.16E-02  COPII vesicle coat
GO:0030117  4.16E-02  membrane coat
GO:0048475  4.16E-02  coated membrane
GO:0030134  4.17E-02  ER to Golgi transport vesicle
00010  4.05E-03  Glycolysis / Gluconeogenesis
Module #11 106 Details
Molecular Function:
GO:0019843  1.46E-02  rRNA binding
Cellular Component:
GO:0044391  1.51E-23  ribosomal subunit
GO:0015934  1.55E-11  large ribosomal subunit
GO:0015935  4.76E-11  small ribosomal subunit
GO:0022626  1.25E-06  cytosolic ribosome
GO:0044445  8.62E-06  cytosolic part
GO:0022627  4.37E-05  cytosolic small ribosomal subunit
GO:0022625  2.69E-02  cytosolic large ribosomal subunit
03010  7.10E-101  Ribosome
Module #12 105 Details
Molecular Function:
GO:0004645  2.11E-02  phosphorylase activity
GO:0005509  2.11E-02  calcium ion binding
Biological Process:
GO:0015979  2.68E-04  photosynthesis
GO:0097298  4.18E-02  regulation of nucleus size
Cellular Component:
GO:0034357  2.96E-07  photosynthetic membrane
GO:0044436  4.30E-07  thylakoid part
GO:0009579  6.98E-07  thylakoid
GO:0042651  1.40E-05  thylakoid membrane
GO:1990204  2.30E-05  oxidoreductase complex
GO:0044434  2.30E-05  chloroplast part
GO:0044435  2.30E-05  plastid part
GO:0009654  2.30E-05  photosystem II oxygen evolving complex
GO:0009521  2.30E-05  photosystem
GO:0009941  3.80E-05  chloroplast envelope
GO:0009526  3.96E-05  plastid envelope
GO:0031967  4.60E-05  organelle envelope
GO:0031975  4.60E-05  envelope
GO:0055035  2.33E-03  plastid thylakoid membrane
GO:0009535  2.33E-03  chloroplast thylakoid membrane
GO:0005829  3.54E-03  cytosol
GO:0009538  3.54E-03  photosystem I reaction center
GO:0009534  3.61E-03  chloroplast thylakoid
GO:0031976  3.61E-03  plastid thylakoid
GO:0009523  3.65E-03  photosystem II
GO:0098796  3.74E-03  membrane protein complex
GO:0019898  3.85E-03  extrinsic component of membrane
GO:0034399  8.16E-03  nuclear periphery
GO:0000229  1.24E-02  cytoplasmic chromosome
GO:0031984  1.25E-02  organelle subcompartment
GO:0009522  3.02E-02  photosystem I
00195  2.00E-03  Photosynthesis
Module #13 104 Details
Molecular Function:
GO:0042586  1.67E-02  peptide deformylase activity
Biological Process:
GO:0042440  3.87E-02  pigment metabolic process
Cellular Component:
GO:0009532  3.60E-12  plastid stroma
GO:0044435  3.60E-12  plastid part
GO:0009570  6.86E-10  chloroplast stroma
GO:0044434  6.86E-10  chloroplast part
GO:0031976  1.62E-04  plastid thylakoid
GO:0009534  1.62E-04  chloroplast thylakoid
GO:0009579  2.83E-04  thylakoid
GO:0031984  8.07E-04  organelle subcompartment
GO:0009526  2.04E-03  plastid envelope
GO:0009941  2.04E-03  chloroplast envelope
GO:0042651  3.03E-03  thylakoid membrane
GO:0009508  8.80E-03  plastid chromosome
GO:0055035  1.03E-02  plastid thylakoid membrane
GO:0009535  1.03E-02  chloroplast thylakoid membrane
GO:0000229  1.07E-02  cytoplasmic chromosome
GO:0034357  1.07E-02  photosynthetic membrane
GO:0042646  1.95E-02  plastid nucleoid
GO:0009295  2.03E-02  nucleoid
GO:0010287  2.10E-02  plastoglobule
GO:0031967  2.69E-02  organelle envelope
GO:0031975  2.69E-02  envelope
GO:0044436  3.60E-02  thylakoid part
00860  1.38E-02  Porphyrin and chlorophyll metabolism
Module #14 101 Details
Cellular Component:
GO:0044434  2.23E-19  chloroplast part
GO:0044435  2.23E-19  plastid part
GO:0009532  2.64E-13  plastid stroma
GO:0009570  3.21E-12  chloroplast stroma
GO:0009941  7.24E-11  chloroplast envelope
GO:0009526  7.51E-11  plastid envelope
GO:0031975  8.17E-09  envelope
GO:0031967  8.17E-09  organelle envelope
GO:0009534  6.18E-07  chloroplast thylakoid
GO:0031976  6.18E-07  plastid thylakoid
GO:0009535  4.05E-06  chloroplast thylakoid membrane
GO:0055035  4.05E-06  plastid thylakoid membrane
GO:0031984  6.09E-06  organelle subcompartment
GO:0042651  2.36E-05  thylakoid membrane
GO:0009579  4.28E-05  thylakoid
GO:0034357  2.11E-04  photosynthetic membrane
GO:0044436  1.78E-03  thylakoid part
00730  8.62E-05  Thiamine metabolism
00630  2.26E-03  Glyoxylate and dicarboxylate metabolism
00230  2.26E-03  Purine metabolism
Module #15 101 Details
Molecular Function:
GO:0016620  1.92E-03  oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
GO:0016903  1.92E-03  oxidoreductase activity, acting on the aldehyde or oxo group of donors
GO:0004030  2.51E-02  aldehyde dehydrogenase [NAD(P)+] activity
Cellular Component:
GO:0044435  2.00E-12  plastid part
GO:0044434  2.00E-12  chloroplast part
GO:0009534  8.83E-06  chloroplast thylakoid
GO:0009570  8.83E-06  chloroplast stroma
GO:0031976  8.83E-06  plastid thylakoid
GO:0009532  1.13E-05  plastid stroma
GO:0031984  4.79E-05  organelle subcompartment
GO:0009579  1.88E-04  thylakoid
GO:0031977  2.05E-04  thylakoid lumen
GO:0055035  6.60E-04  plastid thylakoid membrane
GO:0009535  6.60E-04  chloroplast thylakoid membrane
GO:0009941  1.30E-03  chloroplast envelope
GO:0009526  1.32E-03  plastid envelope
GO:0042651  2.00E-03  thylakoid membrane
GO:0044436  5.69E-03  thylakoid part
GO:0034357  9.02E-03  photosynthetic membrane
GO:0010287  2.19E-02  plastoglobule
GO:0031975  2.53E-02  envelope
GO:0031967  2.53E-02  organelle envelope
00010  3.19E-02  Glycolysis / Gluconeogenesis
00053  3.19E-02  Ascorbate and aldarate metabolism
00561  6.53E-02  Glycerolipid metabolism
00071  6.53E-02  Fatty acid degradation
00030  6.53E-02  Pentose phosphate pathway
03060  6.53E-02  Protein export
Module #16 96 Details
Molecular Function:
GO:0016830  1.36E-02  carbon-carbon lyase activity
GO:0016831  3.31E-02  carboxy-lyase activity
Biological Process:
GO:0015979  8.77E-10  photosynthesis
GO:0046148  2.47E-07  pigment biosynthetic process
GO:0042440  5.00E-07  pigment metabolic process
GO:0006779  1.06E-06  porphyrin-containing compound biosynthetic process
GO:0033014  2.35E-06  tetrapyrrole biosynthetic process
GO:0006778  3.42E-06  porphyrin-containing compound metabolic process
GO:0033013  6.46E-06  tetrapyrrole metabolic process
GO:0051186  3.02E-05  cofactor metabolic process
GO:0051188  1.58E-04  cofactor biosynthetic process
GO:0006783  1.69E-03  heme biosynthetic process
GO:0042168  2.23E-03  heme metabolic process
GO:0015995  2.43E-03  chlorophyll biosynthetic process
GO:0015994  8.28E-03  chlorophyll metabolic process
GO:0006782  1.13E-02  protoporphyrinogen IX biosynthetic process
GO:0046501  1.13E-02  protoporphyrinogen IX metabolic process
GO:0006520  1.86E-02  cellular amino acid metabolic process
Cellular Component:
GO:0009579  1.75E-08  thylakoid
GO:0034357  2.16E-08  photosynthetic membrane
GO:0044436  3.59E-08  thylakoid part
GO:0044434  6.15E-07  chloroplast part
GO:0044435  6.26E-07  plastid part
GO:0009521  1.05E-05  photosystem
GO:0098796  3.92E-05  membrane protein complex
GO:0031976  2.15E-04  plastid thylakoid
GO:0009534  2.15E-04  chloroplast thylakoid
GO:0009570  2.31E-04  chloroplast stroma
GO:0009532  3.01E-04  plastid stroma
GO:0010287  6.27E-04  plastoglobule
GO:0031984  9.72E-04  organelle subcompartment
GO:0009941  2.32E-03  chloroplast envelope
GO:0009523  2.34E-03  photosystem II
GO:0009526  2.34E-03  plastid envelope
GO:0009538  2.51E-03  photosystem I reaction center
GO:0042651  3.23E-03  thylakoid membrane
GO:0009535  1.13E-02  chloroplast thylakoid membrane
GO:0055035  1.13E-02  plastid thylakoid membrane
GO:0009522  2.28E-02  photosystem I
GO:0031967  4.12E-02  organelle envelope
GO:0031975  4.12E-02  envelope
00860  1.06E-05  Porphyrin and chlorophyll metabolism
00195  6.56E-04  Photosynthesis
00710  6.09E-03  Carbon fixation in photosynthetic organisms
00630  1.14E-02  Glyoxylate and dicarboxylate metabolism
Module #17 95 Details
Cellular Component:
GO:0044435  5.76E-07  plastid part
GO:0009532  1.45E-06  plastid stroma
GO:0044434  2.31E-06  chloroplast part
GO:0009570  1.10E-05  chloroplast stroma
GO:0009526  2.86E-03  plastid envelope
GO:0009941  2.86E-03  chloroplast envelope
GO:0042646  3.40E-02  plastid nucleoid
GO:0009528  3.40E-02  plastid inner membrane
GO:0009706  3.40E-02  chloroplast inner membrane
GO:0009295  3.40E-02  nucleoid
GO:0031975  4.00E-02  envelope
GO:0031967  4.00E-02  organelle envelope
Module #18 95 Details
Molecular Function:
GO:0016639  3.70E-02  oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor
GO:0005199  3.70E-02  structural constituent of cell wall
00943  2.77E-04  Isoflavonoid biosynthesis
00941  1.01E-02  Flavonoid biosynthesis
00250  1.77E-02  Alanine, aspartate and glutamate metabolism
Module #19 93 Details
Biological Process:
GO:0051649  2.63E-05  establishment of localization in cell
GO:0046907  2.63E-05  intracellular transport
GO:0016192  2.94E-04  vesicle-mediated transport
GO:0006886  5.53E-04  intracellular protein transport
GO:0070727  5.73E-04  cellular macromolecule localization
GO:0034613  5.73E-04  cellular protein localization
GO:0015031  1.34E-03  protein transport
GO:0006401  2.90E-03  RNA catabolic process
GO:0007033  2.90E-03  vacuole organization
GO:0034655  1.03E-02  nucleobase-containing compound catabolic process
GO:0044270  1.64E-02  cellular nitrogen compound catabolic process
GO:0046700  1.65E-02  heterocycle catabolic process
GO:0016050  2.33E-02  vesicle organization
GO:0016071  2.33E-02  mRNA metabolic process
GO:0019439  3.12E-02  aromatic compound catabolic process
GO:1901361  3.12E-02  organic cyclic compound catabolic process
Cellular Component:
GO:0035770  9.56E-08  ribonucleoprotein granule
GO:0000932  9.56E-08  P-body
GO:0036464  9.56E-08  cytoplasmic ribonucleoprotein granule
GO:0044433  8.70E-04  cytoplasmic vesicle part
GO:0048475  1.17E-03  coated membrane
GO:0030117  1.17E-03  membrane coat
GO:0030120  2.36E-03  vesicle coat
GO:0031982  2.36E-03  vesicle
GO:0098588  2.59E-03  bounding membrane of organelle
GO:0030662  2.59E-03  coated vesicle membrane
GO:0030659  4.76E-03  cytoplasmic vesicle membrane
GO:0012506  4.76E-03  vesicle membrane
GO:0098805  6.06E-03  whole membrane
GO:0030135  7.92E-03  coated vesicle
GO:0031090  9.10E-03  organelle membrane
GO:0097708  1.05E-02  intracellular vesicle
GO:0044431  1.05E-02  Golgi apparatus part
GO:0031410  1.05E-02  cytoplasmic vesicle
GO:0030660  1.96E-02  Golgi-associated vesicle membrane
GO:0005798  2.02E-02  Golgi-associated vesicle
GO:0098796  3.34E-02  membrane protein complex
GO:0030658  3.92E-02  transport vesicle membrane
GO:0030133  4.18E-02  transport vesicle
Module #20 91 Details
Molecular Function:
GO:0042626  1.69E-03  ATPase activity, coupled to transmembrane movement of substances
GO:0016820  1.69E-03  hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances
GO:0015405  1.69E-03  P-P-bond-hydrolysis-driven transmembrane transporter activity
GO:0015399  1.69E-03  primary active transmembrane transporter activity
GO:0016853  1.76E-02  isomerase activity
GO:0008061  1.76E-02  chitin binding
03008  3.53E-03  Ribosome biogenesis in eukaryotes
Module #21 90 Details
Cellular Component:
GO:0044435  5.84E-04  plastid part
GO:0044434  5.84E-04  chloroplast part
GO:0009570  5.10E-03  chloroplast stroma
GO:0009532  5.16E-03  plastid stroma
Module #22 89 Details
Module #23 87 Details
Molecular Function:
GO:0019843  7.98E-03  rRNA binding
Cellular Component:
GO:0044391  4.91E-19  ribosomal subunit
GO:0015935  1.94E-11  small ribosomal subunit
GO:0015934  9.61E-07  large ribosomal subunit
03010  3.20E-83  Ribosome
Module #24 87 Details
Molecular Function:
GO:0016857  1.27E-02  racemase and epimerase activity, acting on carbohydrates and derivatives
GO:0016854  1.27E-02  racemase and epimerase activity
GO:0003978  1.43E-02  UDP-glucose 4-epimerase activity
GO:0008238  2.06E-02  exopeptidase activity
GO:0004345  2.06E-02  glucose-6-phosphate dehydrogenase activity
GO:0050661  2.70E-02  NADP binding
Biological Process:
GO:0019318  1.89E-04  hexose metabolic process
GO:0005996  8.08E-04  monosaccharide metabolic process
GO:0044723  3.35E-02  single-organism carbohydrate metabolic process
Module #25 82 Details
Molecular Function:
GO:0016168  9.29E-10  chlorophyll binding
GO:0016984  4.40E-06  ribulose-bisphosphate carboxylase activity
GO:0016830  9.58E-04  carbon-carbon lyase activity
GO:0016831  4.78E-03  carboxy-lyase activity
Biological Process:
GO:0015979  1.35E-22  photosynthesis
GO:0019684  1.49E-05  photosynthesis, light reaction
GO:0009765  1.49E-05  photosynthesis, light harvesting
GO:0009853  3.84E-05  photorespiration
GO:0015977  3.44E-04  carbon fixation
GO:0006091  5.71E-04  generation of precursor metabolites and energy
GO:0043094  1.99E-03  cellular metabolic compound salvage
GO:0046148  3.61E-03  pigment biosynthetic process
GO:0042440  5.91E-03  pigment metabolic process
GO:0051186  2.22E-02  cofactor metabolic process
GO:0006779  3.12E-02  porphyrin-containing compound biosynthetic process
GO:0033014  4.64E-02  tetrapyrrole biosynthetic process
Cellular Component:
GO:0009521  2.48E-19  photosystem
GO:0034357  6.74E-16  photosynthetic membrane
GO:0009522  6.75E-16  photosystem I
GO:0098796  2.06E-15  membrane protein complex
GO:0044436  4.46E-14  thylakoid part
GO:0009579  1.20E-13  thylakoid
GO:0009523  8.49E-12  photosystem II
GO:0009535  6.48E-07  chloroplast thylakoid membrane
GO:0055035  6.48E-07  plastid thylakoid membrane
GO:0031976  1.43E-06  plastid thylakoid
GO:0009534  1.43E-06  chloroplast thylakoid
GO:0044434  2.77E-06  chloroplast part
GO:0042651  2.91E-06  thylakoid membrane
GO:0044435  2.91E-06  plastid part
GO:0031984  9.92E-06  organelle subcompartment
GO:0009538  1.56E-03  photosystem I reaction center
GO:0010287  1.74E-02  plastoglobule
00196  3.72E-06  Photosynthesis - antenna proteins
00195  3.72E-06  Photosynthesis
00710  3.72E-06  Carbon fixation in photosynthetic organisms
00860  5.99E-05  Porphyrin and chlorophyll metabolism
00630  7.85E-03  Glyoxylate and dicarboxylate metabolism
00030  7.85E-03  Pentose phosphate pathway
Module #26 82 Details
Biological Process:
GO:0009657  7.04E-06  plastid organization
GO:0009658  4.58E-05  chloroplast organization
GO:0009793  6.14E-04  embryo development ending in seed dormancy
GO:0009790  8.16E-04  embryo development
GO:0048316  4.10E-03  seed development
GO:0009791  4.10E-03  post-embryonic development
GO:0010154  4.17E-03  fruit development
GO:0061458  9.51E-03  reproductive system development
GO:0048608  9.51E-03  reproductive structure development
GO:0003006  2.15E-02  developmental process involved in reproduction
GO:0033014  3.30E-02  tetrapyrrole biosynthetic process
Cellular Component:
GO:0044435  2.30E-14  plastid part
GO:0044434  1.96E-13  chloroplast part
GO:0009526  3.06E-11  plastid envelope
GO:0009941  3.06E-11  chloroplast envelope
GO:0031975  4.13E-08  envelope
GO:0031967  4.13E-08  organelle envelope
GO:0009532  4.13E-08  plastid stroma
GO:0009570  3.94E-07  chloroplast stroma
GO:0031969  2.32E-04  chloroplast membrane
GO:0042170  2.59E-04  plastid membrane
GO:0009706  2.94E-04  chloroplast inner membrane
GO:0009528  3.69E-04  plastid inner membrane
GO:0042646  2.74E-02  plastid nucleoid
GO:0009295  2.79E-02  nucleoid
GO:0019866  4.55E-02  organelle inner membrane
00970  5.57E-02  Aminoacyl-tRNA biosynthesis
Module #27 82 Details
Molecular Function:
GO:0015925  3.39E-06  galactosidase activity
GO:0046527  6.12E-03  glucosyltransferase activity
GO:0035251  6.12E-03  UDP-glucosyltransferase activity
Biological Process:
GO:0045229  3.62E-03  external encapsulating structure organization
GO:0071555  3.62E-03  cell wall organization
GO:0016117  3.62E-03  carotenoid biosynthetic process
GO:0016114  1.99E-02  terpenoid biosynthetic process
GO:0006721  2.27E-02  terpenoid metabolic process
Cellular Component:
GO:0005829  1.36E-02  cytosol
GO:0030312  1.36E-02  external encapsulating structure
GO:0005618  1.36E-02  cell wall
00906  3.20E-03  Carotenoid biosynthesis
Module #28 82 Details
Molecular Function:
GO:0005525  5.66E-03  GTP binding
GO:0001883  5.66E-03  purine nucleoside binding
GO:0032561  5.66E-03  guanyl ribonucleotide binding
GO:0019001  5.66E-03  guanyl nucleotide binding
GO:0032550  5.66E-03  purine ribonucleoside binding
GO:0001882  5.74E-03  nucleoside binding
GO:0032549  5.74E-03  ribonucleoside binding
Biological Process:
GO:0022613  1.30E-06  ribonucleoprotein complex biogenesis
GO:0042254  7.25E-05  ribosome biogenesis
GO:0071826  5.51E-03  ribonucleoprotein complex subunit organization
GO:0022618  5.51E-03  ribonucleoprotein complex assembly
Cellular Component:
GO:0005730  1.74E-03  nucleolus
03008  5.96E-04  Ribosome biogenesis in eukaryotes
Module #29 80 Details
Biological Process:
GO:0044282  2.16E-02  small molecule catabolic process
Module #30 78 Details
Molecular Function:
GO:0050662  3.32E-02  coenzyme binding
GO:0045430  3.32E-02  chalcone isomerase activity
GO:0016872  4.56E-02  intramolecular lyase activity
Module #31 76 Details
Molecular Function:
GO:0016836  1.13E-02  hydro-lyase activity
Cellular Component:
GO:0044435  1.19E-07  plastid part
GO:0044434  1.19E-07  chloroplast part
GO:0009570  3.86E-05  chloroplast stroma
GO:0009532  4.19E-05  plastid stroma
Module #32 75 Details
Module #33 74 Details
Molecular Function:
GO:0016638  4.31E-03  oxidoreductase activity, acting on the CH-NH2 group of donors
GO:0008237  4.31E-03  metallopeptidase activity
Biological Process:
GO:0042816  2.00E-02  vitamin B6 metabolic process
GO:0042819  2.00E-02  vitamin B6 biosynthetic process
Module #34 73 Details
Biological Process:
GO:0009765  4.82E-02  photosynthesis, light harvesting
Cellular Component:
GO:0042651  2.19E-04  thylakoid membrane
GO:0009535  3.63E-04  chloroplast thylakoid membrane
GO:0034357  3.63E-04  photosynthetic membrane
GO:0009521  3.63E-04  photosystem
GO:0055035  3.63E-04  plastid thylakoid membrane
GO:0031976  3.73E-04  plastid thylakoid
GO:0009534  3.73E-04  chloroplast thylakoid
GO:0009522  3.84E-04  photosystem I
GO:0009523  5.76E-04  photosystem II
GO:0031984  1.17E-03  organelle subcompartment
GO:0044436  1.17E-03  thylakoid part
GO:0009579  1.54E-03  thylakoid
GO:0009508  3.79E-03  plastid chromosome
GO:0000229  5.58E-03  cytoplasmic chromosome
GO:0098796  9.48E-03  membrane protein complex
GO:0044434  9.49E-03  chloroplast part
GO:0009295  9.49E-03  nucleoid
GO:0042646  9.49E-03  plastid nucleoid
GO:0044435  9.67E-03  plastid part
00196  2.38E-03  Photosynthesis - antenna proteins
Module #35 73 Details
Molecular Function:
GO:0016681  8.19E-03  oxidoreductase activity, acting on diphenols and related substances as donors, cytochrome as acceptor
GO:0008121  8.19E-03  ubiquinol-cytochrome-c reductase activity
Biological Process:
GO:0009719  1.43E-02  response to endogenous stimulus
GO:0032870  1.43E-02  cellular response to hormone stimulus
GO:0071365  1.43E-02  cellular response to auxin stimulus
GO:0051649  1.43E-02  establishment of localization in cell
GO:0071495  1.43E-02  cellular response to endogenous stimulus
GO:0046907  1.43E-02  intracellular transport
GO:0009734  1.43E-02  auxin-activated signaling pathway
GO:0009755  1.43E-02  hormone-mediated signaling pathway
GO:0009725  1.43E-02  response to hormone
GO:0071310  2.30E-02  cellular response to organic substance
GO:0006886  3.03E-02  intracellular protein transport
GO:0070727  3.27E-02  cellular macromolecule localization
GO:0070887  3.27E-02  cellular response to chemical stimulus
GO:0034613  3.27E-02  cellular protein localization
GO:1902589  4.03E-02  single-organism organelle organization
Cellular Component:
GO:0070469  4.24E-08  respiratory chain
GO:0005743  2.04E-06  mitochondrial inner membrane
GO:0019866  5.36E-06  organelle inner membrane
GO:0031966  1.50E-05  mitochondrial membrane
GO:0005740  2.19E-05  mitochondrial envelope
GO:0044429  5.28E-05  mitochondrial part
GO:0098800  7.44E-05  inner mitochondrial membrane protein complex
GO:0005746  2.17E-04  mitochondrial respiratory chain
GO:0098803  2.17E-04  respiratory chain complex
GO:0098798  2.17E-04  mitochondrial protein complex
GO:0044455  5.89E-04  mitochondrial membrane part
GO:0031090  6.13E-04  organelle membrane
GO:0031975  2.09E-03  envelope
GO:0031967  2.09E-03  organelle envelope
GO:0098796  3.11E-03  membrane protein complex
GO:1990204  3.15E-03  oxidoreductase complex
GO:0030964  4.10E-03  NADH dehydrogenase complex
GO:0005747  4.10E-03  mitochondrial respiratory chain complex I
GO:0045271  4.10E-03  respiratory chain complex I
GO:0005694  1.18E-02  chromosome
GO:0016469  1.18E-02  proton-transporting two-sector ATPase complex
GO:0044427  2.43E-02  chromosomal part
Module #36 72 Details
Cellular Component:
GO:0044435  4.06E-07  plastid part
GO:0044434  3.18E-06  chloroplast part
GO:0009526  4.06E-05  plastid envelope
GO:0009941  4.06E-05  chloroplast envelope
GO:0009532  1.06E-03  plastid stroma
GO:0031975  1.48E-03  envelope
GO:0031967  1.48E-03  organelle envelope
GO:0031969  3.50E-03  chloroplast membrane
GO:0042170  3.64E-03  plastid membrane
GO:0009570  7.80E-03  chloroplast stroma
GO:0009706  1.27E-02  chloroplast inner membrane
GO:0009528  1.43E-02  plastid inner membrane
Module #37 72 Details
Biological Process:
GO:1901617  3.40E-02  organic hydroxy compound biosynthetic process
00020  1.27E-02  Citrate cycle (TCA cycle)
00900  8.84E-02  Terpenoid backbone biosynthesis
Module #38 67 Details
Module #39 67 Details
Biological Process:
GO:0006457  1.56E-10  protein folding
GO:0001731  9.16E-03  formation of translation preinitiation complex
GO:0022613  9.16E-03  ribonucleoprotein complex biogenesis
GO:0002183  9.16E-03  cytoplasmic translational initiation
GO:0006413  1.03E-02  translational initiation
GO:0042026  4.10E-02  protein refolding
Cellular Component:
GO:0070993  1.85E-03  translation preinitiation complex
GO:0016282  1.85E-03  eukaryotic 43S preinitiation complex
GO:0033290  1.85E-03  eukaryotic 48S preinitiation complex
GO:0005852  5.99E-03  eukaryotic translation initiation factor 3 complex
GO:0033179  3.06E-02  proton-transporting V-type ATPase, V0 domain
03013  4.63E-03  RNA transport
Module #40 65 Details
Biological Process:
GO:0042594  3.73E-02  response to starvation
GO:0009991  4.12E-02  response to extracellular stimulus
GO:0031667  4.12E-02  response to nutrient levels
Module #41 65 Details
Molecular Function:
GO:0016168  8.21E-06  chlorophyll binding
GO:0008374  4.01E-02  O-acyltransferase activity
GO:0016407  4.01E-02  acetyltransferase activity
Biological Process:
GO:0009765  1.18E-06  photosynthesis, light harvesting
GO:0006091  1.75E-04  generation of precursor metabolites and energy
GO:0019684  2.90E-04  photosynthesis, light reaction
GO:0090662  3.09E-03  ATP hydrolysis coupled transmembrane transport
GO:0015979  9.96E-03  photosynthesis
Cellular Component:
GO:0098796  1.86E-05  membrane protein complex
GO:0009522  1.86E-05  photosystem I
GO:0009523  2.41E-05  photosystem II
GO:0055035  1.49E-04  plastid thylakoid membrane
GO:0009535  1.49E-04  chloroplast thylakoid membrane
GO:0009521  1.74E-04  photosystem
GO:0031976  1.88E-04  plastid thylakoid
GO:0009534  1.88E-04  chloroplast thylakoid
GO:0042651  3.30E-04  thylakoid membrane
GO:0044434  7.13E-04  chloroplast part
GO:0031984  7.13E-04  organelle subcompartment
GO:0044435  7.45E-04  plastid part
GO:0034357  1.24E-03  photosynthetic membrane
GO:0044436  5.78E-03  thylakoid part
GO:0016469  5.89E-03  proton-transporting two-sector ATPase complex
GO:0009579  7.31E-03  thylakoid
GO:0033176  1.13E-02  proton-transporting V-type ATPase complex
GO:0033178  3.51E-02  proton-transporting two-sector ATPase complex, catalytic domain
00196  7.77E-07  Photosynthesis - antenna proteins
Module #42 64 Details
Module #43 61 Details
Biological Process:
GO:0016053  3.15E-02  organic acid biosynthetic process
GO:0046394  3.15E-02  carboxylic acid biosynthetic process
GO:0006631  3.15E-02  fatty acid metabolic process
Cellular Component:
GO:0044435  2.92E-06  plastid part
GO:0009526  2.15E-05  plastid envelope
GO:0009941  2.15E-05  chloroplast envelope
GO:0044434  2.15E-05  chloroplast part
GO:0031975  9.35E-04  envelope
GO:0031967  9.35E-04  organelle envelope
GO:0031969  2.93E-03  chloroplast membrane
GO:0042170  3.00E-03  plastid membrane
GO:0009532  7.36E-03  plastid stroma
GO:0042651  7.89E-03  thylakoid membrane
GO:0044436  9.50E-03  thylakoid part
GO:0009706  9.50E-03  chloroplast inner membrane
GO:0009528  1.08E-02  plastid inner membrane
GO:0009579  1.09E-02  thylakoid
GO:0034357  1.99E-02  photosynthetic membrane
Module #44 61 Details
Molecular Function:
GO:0043022  2.68E-03  ribosome binding
GO:0043021  1.27E-02  ribonucleoprotein complex binding
GO:0044877  1.46E-02  macromolecular complex binding
Biological Process:
GO:0033692  3.24E-02  cellular polysaccharide biosynthetic process
GO:0009250  3.24E-02  glucan biosynthetic process
GO:0000271  4.59E-02  polysaccharide biosynthetic process
GO:0034637  4.71E-02  cellular carbohydrate biosynthetic process
Module #45 59 Details
Biological Process:
GO:1901657  6.56E-03  glycosyl compound metabolic process
Cellular Component:
GO:0005773  2.56E-02  vacuole
GO:0044437  3.77E-02  vacuolar part
GO:0033176  3.77E-02  proton-transporting V-type ATPase complex
GO:0005774  3.77E-02  vacuolar membrane
Module #46 58 Details
Module #47 56 Details
Module #48 53 Details
04070  7.07E-02  Phosphatidylinositol signaling system
00562  7.07E-02  Inositol phosphate metabolism
Module #49 52 Details
Module #50 52 Details
Molecular Function:
GO:0004784  1.78E-02  superoxide dismutase activity
GO:0016721  1.78E-02  oxidoreductase activity, acting on superoxide radicals as acceptor
GO:0046912  3.44E-02  transferase activity, transferring acyl groups, acyl groups converted into alkyl on transfer
Biological Process:
GO:0006551  7.31E-05  leucine metabolic process
GO:0009081  2.37E-03  branched-chain amino acid metabolic process
GO:0009083  3.86E-03  branched-chain amino acid catabolic process
GO:0006099  4.67E-03  tricarboxylic acid cycle
GO:0009063  4.67E-03  cellular amino acid catabolic process
GO:0009060  5.47E-03  aerobic respiration
GO:0016054  9.01E-03  organic acid catabolic process
GO:0046395  9.01E-03  carboxylic acid catabolic process
GO:0044282  1.87E-02  small molecule catabolic process
GO:1901565  2.62E-02  organonitrogen compound catabolic process
00280  6.42E-03  Valine, leucine and isoleucine degradation
00020  5.84E-02  Citrate cycle (TCA cycle)
Module #51 51 Details
Molecular Function:
GO:0008565  3.05E-02  protein transporter activity
GO:0015197  3.05E-02  peptide transporter activity
Biological Process:
GO:0015031  3.56E-02  protein transport
Cellular Component:
GO:0031090  4.56E-02  organelle membrane
GO:0098796  4.56E-02  membrane protein complex
00020  1.86E-04  Citrate cycle (TCA cycle)
03060  3.38E-02  Protein export
Module #52 49 Details
Cellular Component:
GO:0033180  1.19E-02  proton-transporting V-type ATPase, V1 domain
GO:0098796  3.66E-02  membrane protein complex
Module #53 45 Details
Module #54 42 Details
Biological Process:
GO:0045087  1.10E-02  innate immune response
GO:0006955  1.10E-02  immune response
GO:0002376  1.23E-02  immune system process
Module #55 38 Details
Module #56 38 Details
Cellular Component:
GO:0044815  1.58E-11  DNA packaging complex
GO:0000786  1.58E-11  nucleosome
GO:0032993  1.58E-11  protein-DNA complex
GO:0000785  4.77E-11  chromatin
GO:0044427  1.64E-09  chromosomal part
GO:0005694  3.58E-08  chromosome
Module #57 38 Details
Molecular Function:
GO:0016774  3.43E-02  phosphotransferase activity, carboxyl group as acceptor
Module #58 37 Details
Module #59 36 Details
Molecular Function:
GO:0004471  3.69E-03  malate dehydrogenase (decarboxylating) (NAD+) activity
GO:0004470  3.69E-03  malic enzyme activity
GO:0016615  1.23E-02  malate dehydrogenase activity
00620  7.31E-02  Pyruvate metabolism
Module #60 36 Details
Module #61 36 Details