University of Alabama at Birmingham Section on Statistical Genetics School of Public Health Department of Biostatistics

PCL results for AraCyc pathway: de novo biosynthesis of purine nucleotides I

KEY: Each row represents a single gene that was identified by PLC (pathway-level co-expression) as being co-expressed with two or more genes in this pathway. Column 2 lists probe sets/genes that are co-expressed with annotated pathway members in column 3. Here, co-expression is defined as a regression p value less than 1e-120. If a gene in the first column is shaded blue, then it is already known to be a member of the pathway.

rank probe set:gene id co-expressed with
1 256862_at : AT3G23940
GO:0004160:dihydroxy-acid dehydratase activity
GO:0009255:Entner-Doudoroff pathway
GO:0009099:valine biosynthesis
GO:0003824:catalytic activity
GO:0008152:metabolism
GO:0004456:phosphogluconate dehydratase activity
GO:0009097:isoleucine biosynthesis
GO:0009507:chloroplast
GO:0009082:branched chain family amino acid biosynthesis
probe set,gene slope pvalue rsquared annotations
251599_at
AT3G57610 		0.505 1.66e-132 0.711 step: adenylosuccinate synthase
GO:0004019:adenylosuccinate synthase activity
GO:0006164:purine nucleotide biosynthesis
GO:0005525:GTP binding
GO:0009152:purine ribonucleotide biosynthesis
GO:0009507:chloroplast
250403_at
AT5G10920 		0.717 1.09e-164 0.787 step: adenylosuccinate lyase
GO:0004018:adenylosuccinate lyase activity
GO:0009152:purine ribonucleotide biosynthesis
GO:0004056:argininosuccinate lyase activity
GO:0045239:tricarboxylic acid cycle enzyme complex
GO:0008797:aspartate ammonia-lyase activity
GO:0006526:arginine biosynthesis
GO:0003824:catalytic activity
GO:0006106:fumarate metabolism
GO:0006531:aspartate metabolism
GO:0004333:fumarate hydratase activity
GO:0009507:chloroplast
251830_at
AT3G55010 		0.769 1e-133 0.714 step: catalytic
GO:0005737:cytoplasm
GO:0009113:purine base biosynthesis
GO:0009228:thiamin biosynthesis
GO:0009030:thiamin phosphate kinase activity
GO:0004641:phosphoribosylformylglycinamidine cyclo-ligase activity
GO:0004860:protein kinase inhibitor activity
GO:0003824:catalytic activity
GO:0005576:extracellular region
GO:0006189:'de novo' IMP biosynthesis
GO:0009405:pathogenesis
GO:0009507:chloroplast
267421_at
AT2G35040 		0.755 4.34e-154 0.765 step: IMP cyclohydrolase
GO:0003937:IMP cyclohydrolase activity
GO:0006164:purine nucleotide biosynthesis
GO:0004643:phosphoribosylaminoimidazolecarboxamide formyltransferase activity
GO:0009507:chloroplast
263882_at
AT2G21790 		1.08 3.52e-142 0.736 step: ribonucleoside-diphosphate reductase
GO:0005971:ribonucleoside-diphosphate reductase complex
GO:0004748:ribonucleoside-diphosphate reductase activity
GO:0006260:DNA replication
258243_at
AT3G27740 		0.491 2.3e-132 0.71 step: GMP synthase (glutamine-hydrolyzing)//carbamoyl-phosphate synthase (glutamine-hydrolyzing)
GO:0005737:cytoplasm
GO:0006207:'de novo' pyrimidine base biosynthesis
GO:0003922:GMP synthase (glutamine-hydrolyzing) activity
GO:0006526:arginine biosynthesis
GO:0004049:anthranilate synthase activity
GO:0003824:catalytic activity
GO:0009058:biosynthesis
GO:0006807:nitrogen compound metabolism
GO:0004086:carbamoyl-phosphate synthase activity
GO:0008152:metabolism
GO:0016763:transferase activity, transferring pentosyl groups
GO:0004088:carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity
GO:0006177:GMP biosynthesis
GO:0000105:histidine biosynthesis
GO:0005524:ATP binding
GO:0009507:chloroplast
262754_at
AT1G16350 		0.811 1.38e-121 0.679 step: IMP dehydrogenase
GO:0006177:GMP biosynthesis
GO:0003938:IMP dehydrogenase activity
GO:0003920:GMP reductase activity
GO:0006568:tryptophan metabolism
GO:0003824:catalytic activity
GO:0009117:nucleotide metabolism
GO:0006118:electron transport
GO:0008152:metabolism
GO:0000105:histidine biosynthesis
GO:0004834:tryptophan synthase activity
GO:0008372:cellular component unknown
GO:0016491:oxidoreductase activity
2 250403_at : AT5G10920
GO:0004018:adenylosuccinate lyase activity
GO:0009152:purine ribonucleotide biosynthesis
GO:0004056:argininosuccinate lyase activity
GO:0045239:tricarboxylic acid cycle enzyme complex
GO:0008797:aspartate ammonia-lyase activity
GO:0006526:arginine biosynthesis
GO:0003824:catalytic activity
GO:0006106:fumarate metabolism
GO:0006531:aspartate metabolism
GO:0004333:fumarate hydratase activity
GO:0009507:chloroplast
probe set,gene slope pvalue rsquared annotations
251830_at
AT3G55010 		0.941 2.37e-128 0.699 step: catalytic
GO:0005737:cytoplasm
GO:0009113:purine base biosynthesis
GO:0009228:thiamin biosynthesis
GO:0009030:thiamin phosphate kinase activity
GO:0004641:phosphoribosylformylglycinamidine cyclo-ligase activity
GO:0004860:protein kinase inhibitor activity
GO:0003824:catalytic activity
GO:0005576:extracellular region
GO:0006189:'de novo' IMP biosynthesis
GO:0009405:pathogenesis
GO:0009507:chloroplast
267421_at
AT2G35040 		0.909 1.88e-137 0.724 step: IMP cyclohydrolase
GO:0003937:IMP cyclohydrolase activity
GO:0006164:purine nucleotide biosynthesis
GO:0004643:phosphoribosylaminoimidazolecarboxamide formyltransferase activity
GO:0009507:chloroplast
263882_at
AT2G21790 		1.34 9.93e-143 0.738 step: ribonucleoside-diphosphate reductase
GO:0005971:ribonucleoside-diphosphate reductase complex
GO:0004748:ribonucleoside-diphosphate reductase activity
GO:0006260:DNA replication
258243_at
AT3G27740 		0.599 7.04e-126 0.692 step: GMP synthase (glutamine-hydrolyzing)//carbamoyl-phosphate synthase (glutamine-hydrolyzing)
GO:0005737:cytoplasm
GO:0006207:'de novo' pyrimidine base biosynthesis
GO:0003922:GMP synthase (glutamine-hydrolyzing) activity
GO:0006526:arginine biosynthesis
GO:0004049:anthranilate synthase activity
GO:0003824:catalytic activity
GO:0009058:biosynthesis
GO:0006807:nitrogen compound metabolism
GO:0004086:carbamoyl-phosphate synthase activity
GO:0008152:metabolism
GO:0016763:transferase activity, transferring pentosyl groups
GO:0004088:carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity
GO:0006177:GMP biosynthesis
GO:0000105:histidine biosynthesis
GO:0005524:ATP binding
GO:0009507:chloroplast
3 253921_at : AT4G26900
GO:0000107:imidazoleglycerol phosphate synthase activity
GO:0000105:histidine biosynthesis
GO:0009507:chloroplast
probe set,gene slope pvalue rsquared annotations
251830_at
AT3G55010 		0.999 6.1e-128 0.698 step: catalytic
GO:0005737:cytoplasm
GO:0009113:purine base biosynthesis
GO:0009228:thiamin biosynthesis
GO:0009030:thiamin phosphate kinase activity
GO:0004641:phosphoribosylformylglycinamidine cyclo-ligase activity
GO:0004860:protein kinase inhibitor activity
GO:0003824:catalytic activity
GO:0005576:extracellular region
GO:0006189:'de novo' IMP biosynthesis
GO:0009405:pathogenesis
GO:0009507:chloroplast
267421_at
AT2G35040 		0.971 2.06e-140 0.732 step: IMP cyclohydrolase
GO:0003937:IMP cyclohydrolase activity
GO:0006164:purine nucleotide biosynthesis
GO:0004643:phosphoribosylaminoimidazolecarboxamide formyltransferase activity
GO:0009507:chloroplast
263882_at
AT2G21790 		1.37 7.1e-123 0.683 step: ribonucleoside-diphosphate reductase
GO:0005971:ribonucleoside-diphosphate reductase complex
GO:0004748:ribonucleoside-diphosphate reductase activity
GO:0006260:DNA replication
250403_at
AT5G10920 		0.911 1.53e-141 0.735 step: adenylosuccinate lyase
GO:0004018:adenylosuccinate lyase activity
GO:0009152:purine ribonucleotide biosynthesis
GO:0004056:argininosuccinate lyase activity
GO:0045239:tricarboxylic acid cycle enzyme complex
GO:0008797:aspartate ammonia-lyase activity
GO:0006526:arginine biosynthesis
GO:0003824:catalytic activity
GO:0006106:fumarate metabolism
GO:0006531:aspartate metabolism
GO:0004333:fumarate hydratase activity
GO:0009507:chloroplast
4 259193_at : AT3G01480
GO:0006457:protein folding
GO:0003755:peptidyl-prolyl cis-trans isomerase activity
GO:0009543:thylakoid lumen (sensu Viridiplantae)
probe set,gene slope pvalue rsquared annotations
248748_at
AT5G47840 		0.45 9.76e-179 0.814 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0001906:cell killing
GO:0005524:ATP binding
GO:0009507:chloroplast
247376_at
AT5G63310 		0.77 4.59e-156 0.769 step: nucleoside-diphosphate kinase
GO:0005737:cytoplasm
GO:0005634:nucleus
GO:0004550:nucleoside diphosphate kinase activity
GO:0005524:ATP binding
GO:0042542:response to hydrogen peroxide
246651_at
AT5G35170 		0.73 5.57e-182 0.819 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0005524:ATP binding
GO:0009507:chloroplast
5 258055_at : AT3G16250
GO:0005506:iron ion binding
GO:0009055:electron carrier activity
GO:0005489:electron transporter activity
GO:0006118:electron transport
GO:0009507:chloroplast
probe set,gene slope pvalue rsquared annotations
248748_at
AT5G47840 		0.331 5.25e-178 0.812 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0001906:cell killing
GO:0005524:ATP binding
GO:0009507:chloroplast
247376_at
AT5G63310 		0.572 1.32e-162 0.783 step: nucleoside-diphosphate kinase
GO:0005737:cytoplasm
GO:0005634:nucleus
GO:0004550:nucleoside diphosphate kinase activity
GO:0005524:ATP binding
GO:0042542:response to hydrogen peroxide
246651_at
AT5G35170 		0.519 9.59e-154 0.764 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0005524:ATP binding
GO:0009507:chloroplast
6 255440_at : AT4G02530
GO:0000004:biological process unknown
GO:0005554:molecular function unknown
GO:0009543:thylakoid lumen (sensu Viridiplantae)
probe set,gene slope pvalue rsquared annotations
248748_at
AT5G47840 		0.401 2.5e-168 0.794 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0001906:cell killing
GO:0005524:ATP binding
GO:0009507:chloroplast
247376_at
AT5G63310 		0.703 1.46e-164 0.787 step: nucleoside-diphosphate kinase
GO:0005737:cytoplasm
GO:0005634:nucleus
GO:0004550:nucleoside diphosphate kinase activity
GO:0005524:ATP binding
GO:0042542:response to hydrogen peroxide
246651_at
AT5G35170 		0.635 1.19e-152 0.761 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0005524:ATP binding
GO:0009507:chloroplast
7 251784_at : AT3G55330
GO:0015979:photosynthesis
GO:0030095:photosystem II (sensu Viridiplantae)
GO:0009654:oxygen evolving complex
GO:0005509:calcium ion binding
GO:0009543:thylakoid lumen (sensu Viridiplantae)
probe set,gene slope pvalue rsquared annotations
248748_at
AT5G47840 		0.369 6.27e-186 0.826 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0001906:cell killing
GO:0005524:ATP binding
GO:0009507:chloroplast
247376_at
AT5G63310 		0.622 1.04e-151 0.759 step: nucleoside-diphosphate kinase
GO:0005737:cytoplasm
GO:0005634:nucleus
GO:0004550:nucleoside diphosphate kinase activity
GO:0005524:ATP binding
GO:0042542:response to hydrogen peroxide
246651_at
AT5G35170 		0.574 3.76e-154 0.765 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0005524:ATP binding
GO:0009507:chloroplast
8 265415_at : AT2G20890
GO:0045037:chloroplast stroma protein import
GO:0045038:chloroplast thylakoid membrane protein import
GO:0010027:thylakoid membrane organization and biogenesis
GO:0005554:molecular function unknown
GO:0009507:chloroplast
probe set,gene slope pvalue rsquared annotations
248748_at
AT5G47840 		0.611 1.78e-176 0.81 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0001906:cell killing
GO:0005524:ATP binding
GO:0009507:chloroplast
247376_at
AT5G63310 		1.06 7.16e-168 0.793 step: nucleoside-diphosphate kinase
GO:0005737:cytoplasm
GO:0005634:nucleus
GO:0004550:nucleoside diphosphate kinase activity
GO:0005524:ATP binding
GO:0042542:response to hydrogen peroxide
246651_at
AT5G35170 		0.953 3.49e-150 0.756 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0005524:ATP binding
GO:0009507:chloroplast
9 258333_at : AT3G16000
GO:0009535:thylakoid membrane (sensu Viridiplantae)
GO:0000074:regulation of progression through cell cycle
GO:0006904:vesicle docking during exocytosis
GO:0006725:aromatic compound metabolism
GO:0006355:regulation of transcription, DNA-dependent
GO:0003677:DNA binding
GO:0015031:protein transport
GO:0006415:translational termination
GO:0006412:protein biosynthesis
GO:0042646:plastid nucleoid
probe set,gene slope pvalue rsquared annotations
248748_at
AT5G47840 		0.374 1.15e-147 0.75 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0001906:cell killing
GO:0005524:ATP binding
GO:0009507:chloroplast
247376_at
AT5G63310 		0.68 4.89e-170 0.798 step: nucleoside-diphosphate kinase
GO:0005737:cytoplasm
GO:0005634:nucleus
GO:0004550:nucleoside diphosphate kinase activity
GO:0005524:ATP binding
GO:0042542:response to hydrogen peroxide
246651_at
AT5G35170 		0.608 3.19e-150 0.756 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0005524:ATP binding
GO:0009507:chloroplast
10 264839_at : AT1G03630
GO:0015995:chlorophyll biosynthesis
GO:0009507:chloroplast
GO:0016630:protochlorophyllide reductase activity
GO:0016491:oxidoreductase activity
probe set,gene slope pvalue rsquared annotations
248748_at
AT5G47840 		0.328 5.24e-161 0.779 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0001906:cell killing
GO:0005524:ATP binding
GO:0009507:chloroplast
247376_at
AT5G63310 		0.578 1.08e-161 0.781 step: nucleoside-diphosphate kinase
GO:0005737:cytoplasm
GO:0005634:nucleus
GO:0004550:nucleoside diphosphate kinase activity
GO:0005524:ATP binding
GO:0042542:response to hydrogen peroxide
246651_at
AT5G35170 		0.519 5.32e-146 0.746 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0005524:ATP binding
GO:0009507:chloroplast
11 255078_at : AT4G09010
GO:0005737:cytoplasm
GO:0005634:nucleus
GO:0004601:peroxidase activity
GO:0006979:response to oxidative stress
GO:0009543:thylakoid lumen (sensu Viridiplantae)
probe set,gene slope pvalue rsquared annotations
248748_at
AT5G47840 		0.403 8.95e-175 0.807 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0001906:cell killing
GO:0005524:ATP binding
GO:0009507:chloroplast
247376_at
AT5G63310 		0.71 1.05e-175 0.808 step: nucleoside-diphosphate kinase
GO:0005737:cytoplasm
GO:0005634:nucleus
GO:0004550:nucleoside diphosphate kinase activity
GO:0005524:ATP binding
GO:0042542:response to hydrogen peroxide
246651_at
AT5G35170 		0.626 5.85e-145 0.743 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0005524:ATP binding
GO:0009507:chloroplast
12 251243_at : AT3G61870
GO:0000004:biological process unknown
GO:0005554:molecular function unknown
GO:0009706:chloroplast inner membrane
probe set,gene slope pvalue rsquared annotations
248748_at
AT5G47840 		0.398 1.41e-176 0.81 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0001906:cell killing
GO:0005524:ATP binding
GO:0009507:chloroplast
247376_at
AT5G63310 		0.669 2.8e-143 0.739 step: nucleoside-diphosphate kinase
GO:0005737:cytoplasm
GO:0005634:nucleus
GO:0004550:nucleoside diphosphate kinase activity
GO:0005524:ATP binding
GO:0042542:response to hydrogen peroxide
246651_at
AT5G35170 		0.63 1.55e-160 0.779 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0005524:ATP binding
GO:0009507:chloroplast
13 260542_at : AT2G43560
GO:0005528:FK506 binding
GO:0006457:protein folding
GO:0003755:peptidyl-prolyl cis-trans isomerase activity
GO:0009543:thylakoid lumen (sensu Viridiplantae)
probe set,gene slope pvalue rsquared annotations
248748_at
AT5G47840 		0.386 1.33e-171 0.801 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0001906:cell killing
GO:0005524:ATP binding
GO:0009507:chloroplast
247376_at
AT5G63310 		0.651 1.17e-141 0.735 step: nucleoside-diphosphate kinase
GO:0005737:cytoplasm
GO:0005634:nucleus
GO:0004550:nucleoside diphosphate kinase activity
GO:0005524:ATP binding
GO:0042542:response to hydrogen peroxide
246651_at
AT5G35170 		0.607 2.91e-150 0.756 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0005524:ATP binding
GO:0009507:chloroplast
14 262168_at : AT1G74730
GO:0000004:biological process unknown
GO:0005554:molecular function unknown
GO:0009507:chloroplast
probe set,gene slope pvalue rsquared annotations
248748_at
AT5G47840 		0.421 1.1e-166 0.791 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0001906:cell killing
GO:0005524:ATP binding
GO:0009507:chloroplast
247376_at
AT5G63310 		0.74 5.38e-165 0.788 step: nucleoside-diphosphate kinase
GO:0005737:cytoplasm
GO:0005634:nucleus
GO:0004550:nucleoside diphosphate kinase activity
GO:0005524:ATP binding
GO:0042542:response to hydrogen peroxide
246651_at
AT5G35170 		0.655 2.55e-140 0.732 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0005524:ATP binding
GO:0009507:chloroplast
15 262721_at : AT1G43560
GO:0016853:isomerase activity
GO:0017004:cytochrome complex assembly
GO:0030508:thiol-disulfide exchange intermediate activity
GO:0005489:electron transporter activity
GO:0009507:chloroplast
GO:0006118:electron transport
GO:0015036:disulfide oxidoreductase activity
probe set,gene slope pvalue rsquared annotations
248748_at
AT5G47840 		0.572 7.63e-158 0.773 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0001906:cell killing
GO:0005524:ATP binding
GO:0009507:chloroplast
247376_at
AT5G63310 		0.989 2.52e-146 0.746 step: nucleoside-diphosphate kinase
GO:0005737:cytoplasm
GO:0005634:nucleus
GO:0004550:nucleoside diphosphate kinase activity
GO:0005524:ATP binding
GO:0042542:response to hydrogen peroxide
246651_at
AT5G35170 		0.899 5.14e-140 0.731 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0005524:ATP binding
GO:0009507:chloroplast
16 256675_at : AT3G52170
GO:0000004:biological process unknown
GO:0005554:molecular function unknown
GO:0009507:chloroplast
probe set,gene slope pvalue rsquared annotations
251830_at
AT3G55010 		0.678 9.25e-140 0.73 step: catalytic
GO:0005737:cytoplasm
GO:0009113:purine base biosynthesis
GO:0009228:thiamin biosynthesis
GO:0009030:thiamin phosphate kinase activity
GO:0004641:phosphoribosylformylglycinamidine cyclo-ligase activity
GO:0004860:protein kinase inhibitor activity
GO:0003824:catalytic activity
GO:0005576:extracellular region
GO:0006189:'de novo' IMP biosynthesis
GO:0009405:pathogenesis
GO:0009507:chloroplast
263882_at
AT2G21790 		0.95 2.31e-144 0.742 step: ribonucleoside-diphosphate reductase
GO:0005971:ribonucleoside-diphosphate reductase complex
GO:0004748:ribonucleoside-diphosphate reductase activity
GO:0006260:DNA replication
250403_at
AT5G10920 		0.616 9.3e-153 0.762 step: adenylosuccinate lyase
GO:0004018:adenylosuccinate lyase activity
GO:0009152:purine ribonucleotide biosynthesis
GO:0004056:argininosuccinate lyase activity
GO:0045239:tricarboxylic acid cycle enzyme complex
GO:0008797:aspartate ammonia-lyase activity
GO:0006526:arginine biosynthesis
GO:0003824:catalytic activity
GO:0006106:fumarate metabolism
GO:0006531:aspartate metabolism
GO:0004333:fumarate hydratase activity
GO:0009507:chloroplast
17 262970_at : AT1G75690
GO:0031072:heat shock protein binding
GO:0006457:protein folding
GO:0051082:unfolded protein binding
GO:0009507:chloroplast
probe set,gene slope pvalue rsquared annotations
248748_at
AT5G47840 		0.332 9.75e-183 0.821 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0001906:cell killing
GO:0005524:ATP binding
GO:0009507:chloroplast
247376_at
AT5G63310 		0.55 1e-139 0.73 step: nucleoside-diphosphate kinase
GO:0005737:cytoplasm
GO:0005634:nucleus
GO:0004550:nucleoside diphosphate kinase activity
GO:0005524:ATP binding
GO:0042542:response to hydrogen peroxide
246651_at
AT5G35170 		0.51 2.34e-145 0.744 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0005524:ATP binding
GO:0009507:chloroplast
18 255046_at : AT4G09650
GO:0046933:hydrogen-transporting ATP synthase activity, rotational mechanism
GO:0016469:hydrogen-transporting two-sector ATPase complex
GO:0015986:ATP synthesis coupled proton transport
GO:0046961:hydrogen-transporting ATPase activity, rotational mechanism
GO:0009507:chloroplast
probe set,gene slope pvalue rsquared annotations
248748_at
AT5G47840 		0.352 2.18e-169 0.796 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0001906:cell killing
GO:0005524:ATP binding
GO:0009507:chloroplast
247376_at
AT5G63310 		0.595 1.5e-142 0.737 step: nucleoside-diphosphate kinase
GO:0005737:cytoplasm
GO:0005634:nucleus
GO:0004550:nucleoside diphosphate kinase activity
GO:0005524:ATP binding
GO:0042542:response to hydrogen peroxide
246651_at
AT5G35170 		0.544 1.58e-139 0.73 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0005524:ATP binding
GO:0009507:chloroplast
19 248962_at : AT5G45680
GO:0005528:FK506 binding
GO:0006457:protein folding
GO:0003755:peptidyl-prolyl cis-trans isomerase activity
GO:0009543:thylakoid lumen (sensu Viridiplantae)
probe set,gene slope pvalue rsquared annotations
248748_at
AT5G47840 		0.483 2.33e-199 0.847 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0001906:cell killing
GO:0005524:ATP binding
GO:0009507:chloroplast
247376_at
AT5G63310 		0.829 8.06e-175 0.807 step: nucleoside-diphosphate kinase
GO:0005737:cytoplasm
GO:0005634:nucleus
GO:0004550:nucleoside diphosphate kinase activity
GO:0005524:ATP binding
GO:0042542:response to hydrogen peroxide
246651_at
AT5G35170 		0.724 4.28e-139 0.728 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0005524:ATP binding
GO:0009507:chloroplast
20 256468_at : AT1G32550
GO:0005506:iron ion binding
GO:0009055:electron carrier activity
GO:0005489:electron transporter activity
GO:0006118:electron transport
GO:0009507:chloroplast
probe set,gene slope pvalue rsquared annotations
248748_at
AT5G47840 		0.558 1.09e-158 0.775 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0001906:cell killing
GO:0005524:ATP binding
GO:0009507:chloroplast
247376_at
AT5G63310 		0.994 4.93e-168 0.794 step: nucleoside-diphosphate kinase
GO:0005737:cytoplasm
GO:0005634:nucleus
GO:0004550:nucleoside diphosphate kinase activity
GO:0005524:ATP binding
GO:0042542:response to hydrogen peroxide
246651_at
AT5G35170 		0.874 1.31e-138 0.727 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0005524:ATP binding
GO:0009507:chloroplast
21 251701_at : AT3G56650
GO:0015979:photosynthesis
GO:0005509:calcium ion binding
GO:0009543:thylakoid lumen (sensu Viridiplantae)
probe set,gene slope pvalue rsquared annotations
248748_at
AT5G47840 		0.581 2.79e-208 0.859 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0001906:cell killing
GO:0005524:ATP binding
GO:0009507:chloroplast
247376_at
AT5G63310 		0.938 1.35e-137 0.725 step: nucleoside-diphosphate kinase
GO:0005737:cytoplasm
GO:0005634:nucleus
GO:0004550:nucleoside diphosphate kinase activity
GO:0005524:ATP binding
GO:0042542:response to hydrogen peroxide
246651_at
AT5G35170 		0.888 1.11e-155 0.768 step: adenylate kinase
GO:0005737:cytoplasm
GO:0006139:nucleobase, nucleoside, nucleotide and nucleic acid metabolism
GO:0006235:dTTP biosynthesis
GO:0019201:nucleotide kinase activity
GO:0006233:dTDP biosynthesis
GO:0046034:ATP metabolism
GO:0016776:phosphotransferase activity, phosphate group as acceptor
GO:0004017:adenylate kinase activity
GO:0009061:anaerobic respiration
GO:0009117:nucleotide metabolism
GO:0004798:thymidylate kinase activity
GO:0005524:ATP binding
GO:0009507:chloroplast
22 253860_at : AT4G27700
GO:0005554:molecular function unknown
GO:0007568:aging
GO:0009507:chloroplast
probe set,gene slope pvalue rsquared annotations
248748_at
AT5G47840 		0.435