Co-expression Profiling in shoots when low Nitrogen and Phosphorous levels
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 #1 153 Details
Molecular Function:
GO:0001882  1.39E-03  nucleoside binding
GO:0032549  1.39E-03  ribonucleoside binding
GO:0005525  1.79E-03  GTP binding
GO:0001883  1.79E-03  purine nucleoside binding
GO:0032561  1.79E-03  guanyl ribonucleotide binding
GO:0043021  1.79E-03  ribonucleoprotein complex binding
GO:0019001  1.79E-03  guanyl nucleotide binding
GO:0032550  1.79E-03  purine ribonucleoside binding
GO:0044877  1.81E-03  macromolecular complex binding
GO:0016859  6.11E-03  cis-trans isomerase activity
GO:0003755  6.11E-03  peptidyl-prolyl cis-trans isomerase activity
GO:0016875  1.11E-02  ligase activity, forming carbon-oxygen bonds
GO:0016876  1.11E-02  ligase activity, forming aminoacyl-tRNA and related compounds
GO:0008135  1.11E-02  translation factor activity, RNA binding
GO:0004812  1.11E-02  aminoacyl-tRNA ligase activity
GO:0009881  1.13E-02  photoreceptor activity
Biological Process:
GO:0022613  5.17E-30  ribonucleoprotein complex biogenesis
GO:0042254  7.15E-25  ribosome biogenesis
GO:0006364  1.90E-12  rRNA processing
GO:0034660  8.70E-11  ncRNA metabolic process
GO:0042273  1.04E-06  ribosomal large subunit biogenesis
GO:0071826  1.40E-05  ribonucleoprotein complex subunit organization
GO:0022618  1.40E-05  ribonucleoprotein complex assembly
GO:0006457  3.13E-04  protein folding
GO:0065003  2.54E-02  macromolecular complex assembly
GO:0001731  2.86E-02  formation of translation preinitiation complex
GO:0043933  2.86E-02  macromolecular complex subunit organization
GO:0002183  2.86E-02  cytoplasmic translational initiation
GO:0006413  3.58E-02  translational initiation
Cellular Component:
GO:0005730  1.01E-29  nucleolus
GO:0031981  1.52E-19  nuclear lumen
GO:0030684  5.02E-13  preribosome
GO:0030687  7.84E-05  preribosome, large subunit precursor
GO:0005829  1.50E-03  cytosol
GO:0070993  4.50E-03  translation preinitiation complex
GO:0016282  4.50E-03  eukaryotic 43S preinitiation complex
GO:0033290  4.50E-03  eukaryotic 48S preinitiation complex
GO:0032040  4.50E-03  small-subunit processome
GO:0005852  1.72E-02  eukaryotic translation initiation factor 3 complex
GO:0022625  1.98E-02  cytosolic large ribosomal subunit
GO:0044391  2.07E-02  ribosomal subunit
GO:0015934  2.48E-02  large ribosomal subunit
GO:0005635  2.87E-02  nuclear envelope
GO:0030686  3.35E-02  90S preribosome
03008  9.24E-18  Ribosome biogenesis in eukaryotes
03013  3.59E-02  RNA transport
Module #2 142 Details
Molecular Function:
GO:0008135  1.08E-03  translation factor activity, RNA binding
Biological Process:
GO:0022613  2.01E-17  ribonucleoprotein complex biogenesis
GO:0042254  3.76E-15  ribosome biogenesis
GO:0071826  3.14E-07  ribonucleoprotein complex subunit organization
GO:0006364  3.14E-07  rRNA processing
GO:0022618  3.14E-07  ribonucleoprotein complex assembly
GO:0034660  3.65E-06  ncRNA metabolic process
GO:0042255  1.42E-05  ribosome assembly
GO:0000027  6.70E-05  ribosomal large subunit assembly
GO:0042273  3.63E-04  ribosomal large subunit biogenesis
GO:0070925  6.78E-04  organelle assembly
GO:0043933  2.28E-03  macromolecular complex subunit organization
GO:0042274  2.76E-03  ribosomal small subunit biogenesis
GO:0034622  4.56E-03  cellular macromolecular complex assembly
GO:0065003  7.16E-03  macromolecular complex assembly
GO:0030490  7.29E-03  maturation of SSU-rRNA
GO:0002183  1.44E-02  cytoplasmic translational initiation
GO:0001731  1.44E-02  formation of translation preinitiation complex
GO:0006413  1.89E-02  translational initiation
Cellular Component:
GO:0005730  6.60E-06  nucleolus
GO:0030684  1.61E-04  preribosome
GO:0031981  1.72E-03  nuclear lumen
GO:0044391  2.59E-03  ribosomal subunit
GO:0070993  3.69E-03  translation preinitiation complex
GO:0016282  3.69E-03  eukaryotic 43S preinitiation complex
GO:0033290  3.69E-03  eukaryotic 48S preinitiation complex
GO:0032040  3.69E-03  small-subunit processome
GO:0005852  1.40E-02  eukaryotic translation initiation factor 3 complex
GO:0005829  1.59E-02  cytosol
GO:0015934  2.15E-02  large ribosomal subunit
03010  1.05E-13  Ribosome
03008  3.41E-05  Ribosome biogenesis in eukaryotes
03040  7.43E-02  Spliceosome
03013  7.43E-02  RNA transport
Module #3 140 Details
Biological Process:
GO:0016192  5.33E-03  vesicle-mediated transport
GO:0046907  5.33E-03  intracellular transport
GO:0051649  5.44E-03  establishment of localization in cell
GO:0006886  7.06E-03  intracellular protein transport
GO:0070727  7.50E-03  cellular macromolecule localization
GO:0034613  7.50E-03  cellular protein localization
GO:0019725  9.89E-03  cellular homeostasis
GO:0043102  1.28E-02  amino acid salvage
GO:0015031  1.28E-02  protein transport
GO:0071267  1.28E-02  L-methionine salvage
GO:0045454  1.41E-02  cell redox homeostasis
GO:0006066  2.99E-02  alcohol metabolic process
GO:0044272  2.99E-02  sulfur compound biosynthetic process
GO:0046500  3.85E-02  S-adenosylmethionine metabolic process
Cellular Component:
GO:0030120  1.34E-08  vesicle coat
GO:0030662  1.48E-08  coated vesicle membrane
GO:0030660  1.76E-08  Golgi-associated vesicle membrane
GO:0005798  1.76E-08  Golgi-associated vesicle
GO:0048475  2.17E-08  coated membrane
GO:0030117  2.17E-08  membrane coat
GO:0030659  2.56E-08  cytoplasmic vesicle membrane
GO:0012506  2.58E-08  vesicle membrane
GO:0030135  1.15E-07  coated vesicle
GO:0044433  1.29E-07  cytoplasmic vesicle part
GO:0030126  1.55E-06  COPI vesicle coat
GO:0030137  3.94E-06  COPI-coated vesicle
GO:0030663  3.94E-06  COPI-coated vesicle membrane
GO:0098796  1.17E-05  membrane protein complex
GO:0098805  1.29E-05  whole membrane
GO:0005794  3.70E-05  Golgi apparatus
GO:0044431  7.68E-05  Golgi apparatus part
GO:0097708  7.92E-05  intracellular vesicle
GO:0031410  7.92E-05  cytoplasmic vesicle
GO:0098588  7.98E-05  bounding membrane of organelle
GO:0031982  1.27E-04  vesicle
GO:0031090  8.26E-04  organelle membrane
GO:0030118  1.92E-03  clathrin coat
GO:0030658  4.03E-03  transport vesicle membrane
GO:0030133  4.58E-03  transport vesicle
GO:0000139  4.68E-03  Golgi membrane
GO:0030130  5.34E-03  clathrin coat of trans-Golgi network vesicle
GO:0030140  5.34E-03  trans-Golgi network transport vesicle
GO:0012510  5.34E-03  trans-Golgi network transport vesicle membrane
GO:0030665  5.34E-03  clathrin-coated vesicle membrane
GO:0030125  5.34E-03  clathrin vesicle coat
GO:0030132  5.34E-03  clathrin coat of coated pit
GO:0098589  7.65E-03  membrane region
GO:0005905  7.65E-03  clathrin-coated pit
GO:0031977  1.81E-02  thylakoid lumen
GO:0098797  2.45E-02  plasma membrane protein complex
GO:0010287  3.15E-02  plastoglobule
GO:0005874  4.79E-02  microtubule
00010  1.51E-02  Glycolysis / Gluconeogenesis
Module #4 110 Details
Cellular Component:
GO:0044435  2.48E-04  plastid part
GO:0044434  7.55E-04  chloroplast part
GO:0009532  7.55E-04  plastid stroma
GO:0009570  6.39E-03  chloroplast stroma
Module #5 108 Details
Molecular Function:
GO:0016984  3.74E-05  ribulose-bisphosphate carboxylase activity
GO:2001070  3.27E-02  starch binding
GO:0016168  3.27E-02  chlorophyll binding
GO:0016831  3.27E-02  carboxy-lyase activity
Biological Process:
GO:0015979  8.20E-38  photosynthesis
GO:0019684  1.27E-07  photosynthesis, light reaction
GO:0009735  2.48E-07  response to cytokinin
GO:0006091  2.71E-06  generation of precursor metabolites and energy
GO:0010207  1.41E-05  photosystem II assembly
GO:0009853  5.60E-05  photorespiration
GO:0043094  1.20E-04  cellular metabolic compound salvage
GO:0015977  4.68E-04  carbon fixation
GO:0051188  5.28E-03  cofactor biosynthetic process
GO:0009767  8.50E-03  photosynthetic electron transport chain
GO:0022900  3.32E-02  electron transport chain
GO:0009773  4.41E-02  photosynthetic electron transport in photosystem I
GO:0051186  4.94E-02  cofactor metabolic process
Cellular Component:
GO:0009579  1.03E-40  thylakoid
GO:0034357  5.19E-38  photosynthetic membrane
GO:0044436  2.56E-35  thylakoid part
GO:0009521  4.62E-26  photosystem
GO:0042651  1.68E-22  thylakoid membrane
GO:0098796  4.54E-21  membrane protein complex
GO:0044434  2.24E-19  chloroplast part
GO:0044435  3.17E-19  plastid part
GO:0009534  8.74E-19  chloroplast thylakoid
GO:0031976  8.74E-19  plastid thylakoid
GO:0031984  1.65E-16  organelle subcompartment
GO:0009535  1.68E-16  chloroplast thylakoid membrane
GO:0055035  1.68E-16  plastid thylakoid membrane
GO:0009523  5.43E-14  photosystem II
GO:0009522  7.11E-13  photosystem I
GO:0009526  2.15E-12  plastid envelope
GO:0009538  4.03E-11  photosystem I reaction center
GO:0009941  4.65E-11  chloroplast envelope
GO:0009654  5.11E-10  photosystem II oxygen evolving complex
GO:0031967  7.59E-09  organelle envelope
GO:0031975  7.59E-09  envelope
GO:1990204  1.00E-07  oxidoreductase complex
GO:0009570  6.13E-07  chloroplast stroma
GO:0009532  9.56E-07  plastid stroma
GO:0019898  1.17E-06  extrinsic component of membrane
GO:0010287  3.95E-04  plastoglobule
GO:0010319  1.39E-03  stromule
GO:0031977  1.20E-02  thylakoid lumen
00195  4.12E-16  Photosynthesis
00710  2.66E-04  Carbon fixation in photosynthetic organisms
00630  5.36E-02  Glyoxylate and dicarboxylate metabolism
Module #6 106 Details
Biological Process:
GO:0042254  1.56E-03  ribosome biogenesis
GO:0022613  3.38E-03  ribonucleoprotein complex biogenesis
GO:0006457  2.29E-02  protein folding
Cellular Component:
GO:0005730  9.11E-03  nucleolus
GO:0005829  9.96E-03  cytosol
GO:0031981  9.96E-03  nuclear lumen
GO:0044435  9.96E-03  plastid part
GO:0044434  9.96E-03  chloroplast part
03008  1.69E-03  Ribosome biogenesis in eukaryotes
03018  3.14E-02  RNA degradation
Module #7 104 Details
Molecular Function:
GO:0019843  7.59E-03  rRNA binding
Biological Process:
GO:0006414  5.87E-04  translational elongation
GO:0034248  1.22E-03  regulation of cellular amide metabolic process
GO:0022613  1.22E-03  ribonucleoprotein complex biogenesis
GO:0071826  2.14E-03  ribonucleoprotein complex subunit organization
GO:0022618  2.14E-03  ribonucleoprotein complex assembly
GO:0001731  2.08E-02  formation of translation preinitiation complex
GO:0002183  2.08E-02  cytoplasmic translational initiation
GO:0006413  2.54E-02  translational initiation
GO:0000028  2.87E-02  ribosomal small subunit assembly
GO:0032268  3.87E-02  regulation of cellular protein metabolic process
GO:0042274  4.85E-02  ribosomal small subunit biogenesis
Cellular Component:
GO:0044391  4.70E-15  ribosomal subunit
GO:0015935  2.18E-09  small ribosomal subunit
GO:0015934  6.41E-05  large ribosomal subunit
GO:0070993  3.68E-03  translation preinitiation complex
GO:0016282  3.68E-03  eukaryotic 43S preinitiation complex
GO:0033290  3.68E-03  eukaryotic 48S preinitiation complex
GO:0022626  3.68E-03  cytosolic ribosome
GO:0022627  6.74E-03  cytosolic small ribosomal subunit
GO:0044445  7.69E-03  cytosolic part
GO:0005852  1.10E-02  eukaryotic translation initiation factor 3 complex
03010  9.78E-40  Ribosome
03013  9.32E-02  RNA transport
Module #8 103 Details
Molecular Function:
GO:0008135  3.00E-02  translation factor activity, RNA binding
GO:0016762  3.79E-02  xyloglucan:xyloglucosyl transferase activity
Biological Process:
GO:0010876  4.32E-02  lipid localization
GO:0006869  4.32E-02  lipid transport
00051  9.27E-02  Fructose and mannose metabolism
Module #9 97 Details
Molecular Function:
GO:0016853  2.54E-03  isomerase activity
GO:0005525  2.54E-03  GTP binding
GO:0001883  2.54E-03  purine nucleoside binding
GO:0001882  2.54E-03  nucleoside binding
GO:0032549  2.54E-03  ribonucleoside binding
GO:0032561  2.54E-03  guanyl ribonucleotide binding
GO:0019001  2.54E-03  guanyl nucleotide binding
GO:0032550  2.54E-03  purine ribonucleoside binding
GO:0000996  7.33E-03  core DNA-dependent RNA polymerase binding promoter specificity activity
GO:0016987  7.33E-03  sigma factor activity
GO:0000990  1.56E-02  transcription factor activity, core RNA polymerase binding
GO:0016866  4.92E-02  intramolecular transferase activity
Biological Process:
GO:0009658  1.55E-04  chloroplast organization
GO:0009657  2.04E-04  plastid organization
Cellular Component:
GO:0042646  6.18E-08  plastid nucleoid
GO:0009295  6.18E-08  nucleoid
GO:0044435  1.35E-05  plastid part
GO:0009508  1.05E-04  plastid chromosome
GO:0009532  1.35E-04  plastid stroma
GO:0000229  1.45E-04  cytoplasmic chromosome
GO:0044434  7.80E-04  chloroplast part
GO:0000427  1.49E-03  plastid-encoded plastid RNA polymerase complex
GO:0042644  4.74E-03  chloroplast nucleoid
GO:0009706  2.00E-02  chloroplast inner membrane
GO:0005694  2.06E-02  chromosome
GO:0009528  2.06E-02  plastid inner membrane
04146  9.96E-02  Peroxisome
Module #10 91 Details
Molecular Function:
GO:0005509  3.11E-02  calcium ion binding
Module #11 88 Details
Cellular Component:
GO:0044815  1.20E-03  DNA packaging complex
GO:0000786  1.20E-03  nucleosome
GO:0032993  1.20E-03  protein-DNA complex
GO:0000785  1.89E-03  chromatin
GO:0044427  1.10E-02  chromosomal part
GO:0000502  2.43E-02  proteasome complex
GO:0030131  2.43E-02  clathrin adaptor complex
GO:1905369  2.43E-02  endopeptidase complex
GO:0030119  2.71E-02  AP-type membrane coat adaptor complex
GO:0005694  2.71E-02  chromosome
GO:1905368  2.71E-02  peptidase complex
GO:0030118  3.68E-02  clathrin coat
03050  2.42E-02  Proteasome
Module #12 88 Details
Module #13 87 Details
04626  1.62E-02  Plant-pathogen interaction
Module #14 86 Details
03050  9.42E-03  Proteasome
03040  8.03E-02  Spliceosome
00730  9.03E-02  Thiamine metabolism
Module #15 83 Details
Cellular Component:
GO:0044815  1.05E-04  DNA packaging complex
GO:0000786  1.05E-04  nucleosome
GO:0032993  1.05E-04  protein-DNA complex
GO:0000785  1.93E-04  chromatin
GO:0044427  1.68E-03  chromosomal part
GO:0005694  1.08E-02  chromosome
GO:0031090  2.61E-02  organelle membrane
GO:0030117  2.66E-02  membrane coat
GO:0048475  2.66E-02  coated membrane
Module #16 82 Details
Module #17 80 Details
Module #18 80 Details
Molecular Function:
GO:0016851  6.51E-03  magnesium chelatase activity
GO:0051002  6.51E-03  ligase activity, forming nitrogen-metal bonds
GO:0051003  6.51E-03  ligase activity, forming nitrogen-metal bonds, forming coordination complexes
GO:0004312  4.40E-02  fatty acid synthase activity
GO:0016668  4.63E-02  oxidoreductase activity, acting on a sulfur group of donors, NAD(P) as acceptor
Biological Process:
GO:0032544  2.47E-08  plastid translation
GO:0009657  3.96E-05  plastid organization
GO:0006779  1.63E-04  porphyrin-containing compound biosynthetic process
GO:0033014  2.82E-04  tetrapyrrole biosynthetic process
GO:0006778  3.56E-04  porphyrin-containing compound metabolic process
GO:0033013  5.67E-04  tetrapyrrole metabolic process
GO:0051188  6.78E-03  cofactor biosynthetic process
GO:0009658  3.94E-02  chloroplast organization
Cellular Component:
GO:0009532  3.42E-32  plastid stroma
GO:0009570  3.18E-31  chloroplast stroma
GO:0044435  1.47E-30  plastid part
GO:0044434  2.65E-29  chloroplast part
GO:0009941  1.39E-15  chloroplast envelope
GO:0009526  1.54E-15  plastid envelope
GO:0031975  2.53E-11  envelope
GO:0031967  2.53E-11  organelle envelope
GO:0009579  7.14E-05  thylakoid
GO:0031976  3.19E-03  plastid thylakoid
GO:0009534  3.19E-03  chloroplast thylakoid
GO:0031984  1.36E-02  organelle subcompartment
03010  1.20E-23  Ribosome
00860  1.63E-03  Porphyrin and chlorophyll metabolism
Module #19 80 Details
Biological Process:
GO:0044283  5.57E-03  small molecule biosynthetic process
GO:0016053  5.77E-03  organic acid biosynthetic process
GO:0046394  5.77E-03  carboxylic acid biosynthetic process
Cellular Component:
GO:0099080  4.74E-02  supramolecular complex
GO:0099081  4.74E-02  supramolecular polymer
GO:0005874  4.74E-02  microtubule
GO:0099512  4.74E-02  supramolecular fiber
GO:0099513  4.74E-02  polymeric cytoskeletal fiber
00780  7.35E-03  Biotin metabolism
00061  7.35E-03  Fatty acid biosynthesis
Module #20 78 Details
Molecular Function:
GO:0005200  3.53E-03  structural constituent of cytoskeleton
GO:0016762  1.71E-02  xyloglucan:xyloglucosyl transferase activity
Biological Process:
GO:0006787  1.85E-02  porphyrin-containing compound catabolic process
GO:0015996  1.85E-02  chlorophyll catabolic process
GO:0051187  1.85E-02  cofactor catabolic process
GO:0046149  1.85E-02  pigment catabolic process
GO:0033015  1.85E-02  tetrapyrrole catabolic process
GO:0010383  2.68E-02  cell wall polysaccharide metabolic process
GO:0010410  2.68E-02  hemicellulose metabolic process
GO:0006073  2.94E-02  cellular glucan metabolic process
GO:0007017  2.94E-02  microtubule-based process
GO:0044042  2.94E-02  glucan metabolic process
GO:0044036  3.10E-02  cell wall macromolecule metabolic process
GO:0044264  3.10E-02  cellular polysaccharide metabolic process
GO:0042546  4.94E-02  cell wall biogenesis
Cellular Component:
GO:0099080  2.08E-02  supramolecular complex
GO:0099081  2.08E-02  supramolecular polymer
GO:0048046  2.08E-02  apoplast
GO:0005874  2.08E-02  microtubule
GO:0009570  2.08E-02  chloroplast stroma
GO:0044435  2.08E-02  plastid part
GO:0044434  2.08E-02  chloroplast part
GO:0009532  2.08E-02  plastid stroma
GO:0030312  2.08E-02  external encapsulating structure
GO:0005618  2.08E-02  cell wall
GO:0099512  2.08E-02  supramolecular fiber
GO:0099513  2.08E-02  polymeric cytoskeletal fiber
GO:0044437  2.36E-02  vacuolar part
GO:0005774  2.36E-02  vacuolar membrane
GO:0015630  2.41E-02  microtubule cytoskeleton
04145  3.04E-02  Phagosome
Module #21 72 Details
Cellular Component:
GO:0044815  2.33E-08  DNA packaging complex
GO:0000786  2.33E-08  nucleosome
GO:0032993  2.33E-08  protein-DNA complex
GO:0000785  5.94E-08  chromatin
GO:0044427  1.27E-06  chromosomal part
GO:0005694  1.79E-05  chromosome
GO:0016604  8.54E-03  nuclear body
04712  1.62E-06  Circadian rhythm - plant
Module #22 72 Details
Cellular Component:
GO:0005773  1.69E-02  vacuole
GO:0044437  3.54E-02  vacuolar part
GO:0005774  3.54E-02  vacuolar membrane
Module #23 71 Details
Molecular Function:
GO:0004014  3.71E-02  adenosylmethionine decarboxylase activity
Biological Process:
GO:0006597  4.94E-02  spermine biosynthetic process
GO:0008215  4.94E-02  spermine metabolic process
Module #24 70 Details
04146  3.90E-02  Peroxisome
Module #25 68 Details
Cellular Component:
GO:0005783  3.19E-04  endoplasmic reticulum
04141  1.21E-03  Protein processing in endoplasmic reticulum
04145  1.87E-03  Phagosome
Module #26 68 Details
Module #27 67 Details
Molecular Function:
GO:0004345  9.57E-07  glucose-6-phosphate dehydrogenase activity
GO:0050662  1.11E-04  coenzyme binding
GO:0050661  1.02E-03  NADP binding
GO:0016616  1.02E-03  oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
GO:0046857  1.72E-03  oxidoreductase activity, acting on other nitrogenous compounds as donors, with NAD or NADP as acceptor
GO:0016661  2.39E-03  oxidoreductase activity, acting on other nitrogenous compounds as donors
GO:0016614  6.17E-03  oxidoreductase activity, acting on CH-OH group of donors
Biological Process:
GO:0005996  2.46E-05  monosaccharide metabolic process
GO:0044723  1.56E-04  single-organism carbohydrate metabolic process
GO:0019318  2.21E-03  hexose metabolic process
GO:0006098  3.05E-03  pentose-phosphate shunt
GO:0051156  3.05E-03  glucose 6-phosphate metabolic process
GO:0019682  3.51E-03  glyceraldehyde-3-phosphate metabolic process
GO:0051186  3.51E-03  cofactor metabolic process
GO:0006732  6.82E-03  coenzyme metabolic process
GO:1903409  7.54E-03  reactive oxygen species biosynthetic process
GO:2001057  7.91E-03  reactive nitrogen species metabolic process
GO:0042126  7.91E-03  nitrate metabolic process
GO:0042128  7.91E-03  nitrate assimilation
GO:0071941  9.72E-03  nitrogen cycle metabolic process
GO:0006081  1.36E-02  cellular aldehyde metabolic process
GO:0019362  3.45E-02  pyridine nucleotide metabolic process
GO:0072524  3.89E-02  pyridine-containing compound metabolic process
GO:0006733  4.50E-02  oxidoreduction coenzyme metabolic process
00030  3.71E-06  Pentose phosphate pathway
00910  1.93E-04  Nitrogen metabolism
00480  1.00E-03  Glutathione metabolism
Module #28 66 Details
Molecular Function:
GO:0005509  4.08E-02  calcium ion binding
Biological Process:
GO:0015979  3.14E-11  photosynthesis
GO:0019684  1.95E-08  photosynthesis, light reaction
GO:0006091  1.73E-06  generation of precursor metabolites and energy
GO:0009767  1.78E-03  photosynthetic electron transport chain
Cellular Component:
GO:0042651  6.01E-18  thylakoid membrane
GO:0044435  5.22E-17  plastid part
GO:0044434  5.22E-17  chloroplast part
GO:0034357  2.18E-16  photosynthetic membrane
GO:0031976  9.62E-16  plastid thylakoid
GO:0009534  9.62E-16  chloroplast thylakoid
GO:0009579  1.19E-15  thylakoid
GO:0055035  8.99E-15  plastid thylakoid membrane
GO:0009535  8.99E-15  chloroplast thylakoid membrane
GO:0044436  1.05E-14  thylakoid part
GO:0031984  2.87E-14  organelle subcompartment
GO:0009523  2.75E-09  photosystem II
GO:0009654  4.05E-09  photosystem II oxygen evolving complex
GO:0019898  8.37E-08  extrinsic component of membrane
GO:0009521  9.74E-08  photosystem
GO:1990204  2.87E-07  oxidoreductase complex
GO:0098796  2.65E-06  membrane protein complex
GO:0009570  5.48E-06  chloroplast stroma
GO:0009532  7.52E-06  plastid stroma
Module #29 65 Details
Module #30 63 Details
Molecular Function:
GO:0016702  8.20E-07  oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen
GO:0051213  8.20E-07  dioxygenase activity
GO:0016701  1.00E-06  oxidoreductase activity, acting on single donors with incorporation of molecular oxygen
GO:0061134  2.69E-06  peptidase regulator activity
GO:0004866  2.69E-06  endopeptidase inhibitor activity
GO:0030414  2.69E-06  peptidase inhibitor activity
GO:0061135  2.69E-06  endopeptidase regulator activity
GO:0004857  5.15E-05  enzyme inhibitor activity
Biological Process:
GO:0031407  4.74E-07  oxylipin metabolic process
GO:0006633  4.31E-04  fatty acid biosynthetic process
GO:0006631  6.82E-04  fatty acid metabolic process
GO:0008610  9.84E-03  lipid biosynthetic process
GO:0016053  9.84E-03  organic acid biosynthetic process
GO:0046394  9.84E-03  carboxylic acid biosynthetic process
GO:0044283  2.03E-02  small molecule biosynthetic process
GO:0044255  2.03E-02  cellular lipid metabolic process
Cellular Component:
GO:0048046  5.93E-03  apoplast
00591  8.95E-05  Linoleic acid metabolism
Module #31 63 Details
Module #32 62 Details
Molecular Function:
GO:0019843  2.38E-05  rRNA binding
Cellular Component:
GO:0044391  6.10E-09  ribosomal subunit
GO:0015935  1.33E-05  small ribosomal subunit
GO:0015934  1.35E-02  large ribosomal subunit
03010  1.48E-44  Ribosome
Module #33 62 Details
Molecular Function:
GO:0001671  5.95E-03  ATPase activator activity
GO:0060590  1.38E-02  ATPase regulator activity
GO:0008047  1.80E-02  enzyme activator activity
GO:0060589  1.80E-02  nucleoside-triphosphatase regulator activity
Biological Process:
GO:0006457  1.35E-07  protein folding
GO:0009628  3.50E-04  response to abiotic stimulus
GO:0009408  2.44E-03  response to heat
GO:0009266  1.90E-02  response to temperature stimulus
GO:0010035  4.49E-02  response to inorganic substance
04141  2.64E-03  Protein processing in endoplasmic reticulum
00480  2.94E-02  Glutathione metabolism
Module #34 62 Details
Molecular Function:
GO:0016168  2.34E-02  chlorophyll binding
Biological Process:
GO:0009765  4.82E-02  photosynthesis, light harvesting
Cellular Component:
GO:0009523  3.23E-02  photosystem II
GO:0044435  3.23E-02  plastid part
GO:0044434  3.23E-02  chloroplast part
GO:0009522  3.23E-02  photosystem I
00196  2.72E-03  Photosynthesis - antenna proteins
Module #35 60 Details
Molecular Function:
GO:0045156  3.10E-03  electron transporter, transferring electrons within the cyclic electron transport pathway of photosynthesis activity
Biological Process:
GO:0015979  2.46E-07  photosynthesis
GO:0009767  5.78E-05  photosynthetic electron transport chain
GO:0055114  3.66E-04  oxidation-reduction process
GO:0006091  3.66E-04  generation of precursor metabolites and energy
GO:0019684  3.66E-04  photosynthesis, light reaction
GO:0009772  3.66E-04  photosynthetic electron transport in photosystem II
GO:0022900  8.64E-04  electron transport chain
Cellular Component:
GO:0009521  2.46E-07  photosystem
GO:0034357  6.17E-06  photosynthetic membrane
GO:0044436  3.38E-05  thylakoid part
GO:0098796  3.38E-05  membrane protein complex
GO:0009579  4.35E-05  thylakoid
GO:0009523  2.95E-04  photosystem II
GO:0009522  7.20E-03  photosystem I
00195  4.94E-04  Photosynthesis
Module #36 60 Details
04626  9.68E-02  Plant-pathogen interaction
Module #37 60 Details
03060  2.69E-03  Protein export
00250  7.60E-02  Alanine, aspartate and glutamate metabolism
03013  7.60E-02  RNA transport
Module #38 59 Details
Molecular Function:
GO:0003839  9.91E-03  gamma-glutamylcyclotransferase activity
GO:0016755  1.38E-02  transferase activity, transferring amino-acyl groups
GO:0004372  1.48E-02  glycine hydroxymethyltransferase activity
GO:0015116  3.53E-02  sulfate transmembrane transporter activity
GO:1901682  3.53E-02  sulfur compound transmembrane transporter activity
GO:0008271  3.53E-02  secondary active sulfate transmembrane transporter activity
GO:0016742  3.53E-02  hydroxymethyl-, formyl- and related transferase activity
GO:1901681  4.60E-02  sulfur compound binding
Biological Process:
GO:0006790  1.39E-04  sulfur compound metabolic process
GO:0006575  1.39E-04  cellular modified amino acid metabolic process
GO:0006749  1.79E-03  glutathione metabolic process
GO:0006730  7.60E-03  one-carbon metabolic process
GO:0009069  1.69E-02  serine family amino acid metabolic process
GO:0043171  1.70E-02  peptide catabolic process
GO:0006751  1.70E-02  glutathione catabolic process
GO:0042219  3.74E-02  cellular modified amino acid catabolic process
GO:0035999  3.83E-02  tetrahydrofolate interconversion
GO:0044273  4.45E-02  sulfur compound catabolic process
00920  3.86E-02  Sulfur metabolism
Module #39 59 Details
Module #40 57 Details
Biological Process:
GO:0016052  2.90E-02  carbohydrate catabolic process
GO:0005976  2.90E-02  polysaccharide metabolic process
GO:0000272  2.90E-02  polysaccharide catabolic process
Module #41 57 Details
Biological Process:
GO:0051341  3.43E-02  regulation of oxidoreductase activity
Module #42 57 Details
Molecular Function:
GO:0016168  1.61E-06  chlorophyll binding
Biological Process:
GO:0009765  2.85E-09  photosynthesis, light harvesting
GO:0015979  6.46E-07  photosynthesis
GO:0019684  2.93E-06  photosynthesis, light reaction
GO:0006091  8.25E-04  generation of precursor metabolites and energy
Cellular Component:
GO:0044434  5.26E-10  chloroplast part
GO:0044435  5.26E-10  plastid part
GO:0009534  8.88E-10  chloroplast thylakoid
GO:0031976  8.88E-10  plastid thylakoid
GO:0031984  1.36E-08  organelle subcompartment
GO:0009579  1.01E-07  thylakoid
GO:0055035  2.10E-07  plastid thylakoid membrane
GO:0009535  2.10E-07  chloroplast thylakoid membrane
GO:0009522  2.10E-07  photosystem I
GO:0044436  5.57E-07  thylakoid part
GO:0034357  6.26E-07  photosynthetic membrane
GO:0042651  1.12E-06  thylakoid membrane
GO:0009521  7.59E-06  photosystem
GO:0009523  1.33E-05  photosystem II
GO:0009941  2.73E-04  chloroplast envelope
GO:0009526  2.82E-04  plastid envelope
GO:0098796  1.13E-03  membrane protein complex
GO:0031967  7.20E-03  organelle envelope
GO:0031975  7.20E-03  envelope
00196  1.45E-07  Photosynthesis - antenna proteins
Module #43 56 Details
Cellular Component:
GO:0005783  2.88E-03  endoplasmic reticulum
Module #44 55 Details
Cellular Component:
GO:0044391  3.74E-07  ribosomal subunit
GO:0015935  1.47E-05  small ribosomal subunit
GO:0022627  6.19E-03  cytosolic small ribosomal subunit
03010  2.36E-53  Ribosome
Module #45 54 Details
Cellular Component:
GO:0044435  8.12E-06  plastid part
GO:0044434  8.12E-06  chloroplast part
GO:0009570  3.68E-04  chloroplast stroma
GO:0009532  3.75E-04  plastid stroma
00300  8.31E-02  Lysine biosynthesis
00670  9.24E-02  One carbon pool by folate
00290  9.24E-02  Valine, leucine and isoleucine biosynthesis
Module #46 53 Details
Module #47 53 Details
Molecular Function:
GO:0016667  4.23E-02  oxidoreductase activity, acting on a sulfur group of donors
Cellular Component:
GO:0031975  3.87E-03  envelope
GO:0009526  3.87E-03  plastid envelope
GO:0031967  3.87E-03  organelle envelope
GO:0009941  3.87E-03  chloroplast envelope
Module #48 52 Details
Molecular Function:
GO:0015002  1.80E-02  heme-copper terminal oxidase activity
GO:0004129  1.80E-02  cytochrome-c oxidase activity
GO:0022836  1.80E-02  gated channel activity
GO:0016676  1.80E-02  oxidoreductase activity, acting on a heme group of donors, oxygen as acceptor
GO:0016675  1.80E-02  oxidoreductase activity, acting on a heme group of donors
GO:0016836  1.84E-02  hydro-lyase activity
GO:0022803  1.84E-02  passive transmembrane transporter activity
GO:0005216  1.84E-02  ion channel activity
GO:0022838  1.84E-02  substrate-specific channel activity
GO:0015267  1.84E-02  channel activity
Cellular Component:
GO:0044429  1.63E-02  mitochondrial part
GO:0031975  1.63E-02  envelope
GO:0031967  1.63E-02  organelle envelope
GO:0005740  1.63E-02  mitochondrial envelope
00071  7.75E-02  Fatty acid degradation
Module #49 50 Details
03040  3.57E-03  Spliceosome
Module #50 49 Details
Module #51 49 Details
Cellular Component:
GO:0035770  2.34E-02  ribonucleoprotein granule
GO:0000932  2.34E-02  P-body
GO:0036464  2.34E-02  cytoplasmic ribonucleoprotein granule
Module #52 49 Details
Molecular Function:
GO:0070003  1.97E-05  threonine-type peptidase activity
Cellular Component:
GO:0005839  5.09E-06  proteasome core complex
GO:0000502  1.27E-04  proteasome complex
GO:1905369  1.27E-04  endopeptidase complex
GO:1905368  1.44E-04  peptidase complex
03050  2.63E-03  Proteasome
00020  2.63E-03  Citrate cycle (TCA cycle)
Module #53 49 Details
Module #54 49 Details
Biological Process:
GO:0006732  2.98E-03  coenzyme metabolic process
GO:0009108  3.30E-03  coenzyme biosynthetic process
GO:0009651  3.32E-03  response to salt stress
GO:0051186  3.32E-03  cofactor metabolic process
GO:0006970  3.32E-03  response to osmotic stress
GO:0051188  8.81E-03  cofactor biosynthetic process
GO:0009628  1.80E-02  response to abiotic stimulus
GO:0009738  1.89E-02  abscisic acid-activated signaling pathway
GO:0097306  2.32E-02  cellular response to alcohol
GO:1901663  2.32E-02  quinone biosynthetic process
GO:1901661  2.32E-02  quinone metabolic process
GO:0042181  2.32E-02  ketone biosynthetic process
GO:0071215  2.32E-02  cellular response to abscisic acid stimulus
GO:1901700  2.74E-02  response to oxygen-containing compound
GO:0042180  4.71E-02  cellular ketone metabolic process
Module #55 48 Details
00900  1.34E-03  Terpenoid backbone biosynthesis
00072  3.50E-03  Synthesis and degradation of ketone bodies
Module #56 48 Details
04141  1.21E-03  Protein processing in endoplasmic reticulum
03040  7.11E-02  Spliceosome
Module #57 47 Details
Molecular Function:
GO:0016859  2.64E-02  cis-trans isomerase activity
GO:0004747  2.64E-02  ribokinase activity
GO:0003755  2.64E-02  peptidyl-prolyl cis-trans isomerase activity
GO:0016620  3.88E-02  oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
GO:0016903  4.66E-02  oxidoreductase activity, acting on the aldehyde or oxo group of donors
Biological Process:
GO:0044723  2.00E-03  single-organism carbohydrate metabolic process
GO:0005996  1.11E-02  monosaccharide metabolic process
GO:0009069  3.11E-02  serine family amino acid metabolic process
Cellular Component:
GO:0009532  1.90E-03  plastid stroma
GO:0009526  1.90E-03  plastid envelope
GO:0044434  1.90E-03  chloroplast part
GO:0009570  1.90E-03  chloroplast stroma
GO:0044435  1.90E-03  plastid part
GO:0010319  1.90E-03  stromule
GO:0009941  1.90E-03  chloroplast envelope
GO:0031984  3.03E-03  organelle subcompartment
GO:0031977  3.85E-03  thylakoid lumen
GO:0031967  9.49E-03  organelle envelope
GO:0009535  9.49E-03  chloroplast thylakoid membrane
GO:0055035  9.49E-03  plastid thylakoid membrane
GO:0048046  9.49E-03  apoplast
GO:0031975  9.49E-03  envelope
GO:0009534  1.26E-02  chloroplast thylakoid
GO:0031976  1.26E-02  plastid thylakoid
GO:0009579  1.33E-02  thylakoid
GO:0042651  1.68E-02  thylakoid membrane
GO:0034357  4.38E-02  photosynthetic membrane
00710  1.79E-05  Carbon fixation in photosynthetic organisms
00030  1.47E-03  Pentose phosphate pathway
Module #58 47 Details
Module #59 47 Details
Molecular Function:
GO:0102083  1.51E-02  7,8-dihydromonapterin aldolase activity
GO:0003848  1.51E-02  2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase activity
GO:0004150  1.51E-02  dihydroneopterin aldolase activity
GO:0016778  1.79E-02  diphosphotransferase activity
GO:0016832  2.83E-02  aldehyde-lyase activity
Biological Process:
GO:0009607  5.16E-05  response to biotic stimulus
00941  4.15E-03  Flavonoid biosynthesis
Module #60 46 Details
Molecular Function:
GO:0046527  1.72E-03  glucosyltransferase activity
GO:0035251  1.72E-03  UDP-glucosyltransferase activity
GO:0008194  1.39E-02  UDP-glycosyltransferase activity
Biological Process:
GO:0045229  1.49E-04  external encapsulating structure organization
GO:0071555  1.49E-04  cell wall organization
GO:0071669  1.54E-04  plant-type cell wall organization or biogenesis
GO:0009664  2.83E-03  plant-type cell wall organization
GO:0042546  3.65E-03  cell wall biogenesis
GO:0033692  5.47E-03  cellular polysaccharide biosynthetic process
GO:0009832  5.47E-03  plant-type cell wall biogenesis
GO:0000271  1.02E-02  polysaccharide biosynthetic process
GO:0034637  1.24E-02  cellular carbohydrate biosynthetic process
GO:0009834  1.39E-02  plant-type secondary cell wall biogenesis
GO:0016051  2.53E-02  carbohydrate biosynthetic process
GO:0044036  2.53E-02  cell wall macromolecule metabolic process
GO:0044264  2.53E-02  cellular polysaccharide metabolic process
GO:0005976  3.58E-02  polysaccharide metabolic process
GO:0009250  4.61E-02  glucan biosynthetic process
Module #61 46 Details
Molecular Function:
GO:0016875  1.18E-05  ligase activity, forming carbon-oxygen bonds
GO:0016876  1.18E-05  ligase activity, forming aminoacyl-tRNA and related compounds
GO:0004812  1.18E-05  aminoacyl-tRNA ligase activity
GO:0002161  9.23E-03  aminoacyl-tRNA editing activity
GO:0000049  2.34E-02  tRNA binding
Biological Process:
GO:0043038  2.47E-06  amino acid activation
GO:0043039  2.47E-06  tRNA aminoacylation
GO:0034660  1.07E-04  ncRNA metabolic process
GO:0006520  6.63E-03  cellular amino acid metabolic process
00970  9.26E-06  Aminoacyl-tRNA biosynthesis
03018  2.76E-02  RNA degradation
Module #62 45 Details
04712  2.71E-02  Circadian rhythm - plant
Module #63 44 Details
Molecular Function:
GO:0016860  2.37E-03  intramolecular oxidoreductase activity
GO:0016861  2.99E-02  intramolecular oxidoreductase activity, interconverting aldoses and ketoses
Biological Process:
GO:0015979  6.67E-10  photosynthesis
GO:0019684  9.69E-03  photosynthesis, light reaction
GO:0006091  2.07E-02  generation of precursor metabolites and energy
Cellular Component:
GO:0034357  4.51E-17  photosynthetic membrane
GO:0044436  5.09E-17  thylakoid part
GO:0009579  1.12E-16  thylakoid
GO:0042651  2.08E-10  thylakoid membrane
GO:0009523  1.50E-09  photosystem II
GO:0009521  1.50E-09  photosystem
GO:0009535  3.10E-08  chloroplast thylakoid membrane
GO:0055035  3.10E-08  plastid thylakoid membrane
GO:0098796  4.83E-08  membrane protein complex
GO:0031976  6.16E-08  plastid thylakoid
GO:0009534  6.16E-08  chloroplast thylakoid
GO:0031984  5.56E-07  organelle subcompartment
GO:0044434  1.04E-06  chloroplast part
GO:0044435  1.16E-06  plastid part
GO:0009532  2.47E-03  plastid stroma
GO:0009941  3.33E-02  chloroplast envelope
GO:0009526  3.33E-02  plastid envelope
GO:0009570  3.33E-02  chloroplast stroma
00195  3.07E-05  Photosynthesis
00710  8.42E-02  Carbon fixation in photosynthetic organisms
Module #64 44 Details
Module #65 44 Details
Biological Process:
GO:0009699  4.41E-02  phenylpropanoid biosynthetic process
Cellular Component:
GO:0098800  1.52E-05  inner mitochondrial membrane protein complex
GO:0045259  2.03E-05  proton-transporting ATP synthase complex
GO:0098798  2.03E-05  mitochondrial protein complex
GO:0005743  3.56E-05  mitochondrial inner membrane
GO:0044455  3.56E-05  mitochondrial membrane part
GO:0005753  3.56E-05  mitochondrial proton-transporting ATP synthase complex
GO:0016469  3.79E-05  proton-transporting two-sector ATPase complex
GO:0019866  6.66E-05  organelle inner membrane
GO:0031966  1.43E-04  mitochondrial membrane
GO:0005740  1.92E-04  mitochondrial envelope
GO:0044429  3.58E-04  mitochondrial part
GO:0098796  5.27E-04  membrane protein complex
GO:0031975  6.18E-03  envelope
GO:0031967  6.18E-03  organelle envelope
GO:0031090  1.08E-02  organelle membrane
Module #66 41 Details
Molecular Function:
GO:0004332  2.55E-02  fructose-bisphosphate aldolase activity
Biological Process:
GO:0051186  6.44E-04  cofactor metabolic process
GO:0051188  2.64E-02  cofactor biosynthetic process
00860  6.16E-02  Porphyrin and chlorophyll metabolism
00710  7.27E-02  Carbon fixation in photosynthetic organisms
Module #67 41 Details
Module #68 40 Details
Module #69 39 Details
Molecular Function:
GO:0046527  4.25E-04  glucosyltransferase activity
GO:0035251  4.25E-04  UDP-glucosyltransferase activity
GO:0008194  3.53E-03  UDP-glycosyltransferase activity
Biological Process:
GO:0006073  4.41E-04  cellular glucan metabolic process
GO:0044264  4.41E-04  cellular polysaccharide metabolic process
GO:0044042  4.41E-04  glucan metabolic process
GO:0009250  7.81E-04  glucan biosynthetic process
GO:0033692  1.04E-03  cellular polysaccharide biosynthetic process
GO:0044262  1.05E-03  cellular carbohydrate metabolic process
GO:0000271  1.60E-03  polysaccharide biosynthetic process
GO:0034637  1.93E-03  cellular carbohydrate biosynthetic process
GO:0016051  4.40E-03  carbohydrate biosynthetic process
GO:0005976  4.40E-03  polysaccharide metabolic process
GO:0044723  3.97E-02  single-organism carbohydrate metabolic process
Module #70 39 Details
Module #71 38 Details
Cellular Component:
GO:0019773  7.18E-03  proteasome core complex, alpha-subunit complex
GO:0005839  1.86E-02  proteasome core complex
GO:0045261  2.03E-02  proton-transporting ATP synthase complex, catalytic core F(1)
GO:0033178  2.47E-02  proton-transporting two-sector ATPase complex, catalytic domain
GO:0045259  3.78E-02  proton-transporting ATP synthase complex
GO:0000502  4.39E-02  proteasome complex
GO:1905369  4.39E-02  endopeptidase complex
GO:1905368  4.47E-02  peptidase complex
GO:0016469  4.47E-02  proton-transporting two-sector ATPase complex
Module #72 38 Details
Molecular Function:
GO:0016168  3.20E-03  chlorophyll binding
Biological Process:
GO:0019684  1.78E-03  photosynthesis, light reaction
GO:0009765  1.78E-03  photosynthesis, light harvesting
GO:0006091  2.38E-03  generation of precursor metabolites and energy
GO:0042752  1.26E-02  regulation of circadian rhythm
GO:0015979  1.81E-02  photosynthesis
Cellular Component:
GO:0009523  1.89E-02  photosystem II
GO:0009522  1.89E-02  photosystem I
GO:0009521  2.88E-02  photosystem
GO:0031976  2.88E-02  plastid thylakoid
GO:0009535  2.88E-02  chloroplast thylakoid membrane
GO:0009534  2.88E-02  chloroplast thylakoid
GO:0098796  2.88E-02  membrane protein complex
GO:0055035  2.88E-02  plastid thylakoid membrane
GO:0042651  3.83E-02  thylakoid membrane
00196  2.26E-04  Photosynthesis - antenna proteins
Module #73 38 Details
Module #74 37 Details
Cellular Component:
GO:0009526  4.90E-02  plastid envelope
GO:0009941  4.90E-02  chloroplast envelope
GO:0044435  4.90E-02  plastid part
GO:0044434  4.90E-02  chloroplast part
Module #75 37 Details
Molecular Function:
GO:0002161  2.49E-02  aminoacyl-tRNA editing activity
Module #76 34 Details
Module #77 34 Details
Cellular Component:
GO:0048500  4.11E-02  signal recognition particle
Module #78 34 Details
Molecular Function:
GO:0005199  3.22E-03  structural constituent of cell wall