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Show all genes, phenotypes and metabolites for which the QTL profile correlates with that of the query profile above the set cut-off, the query trait is in the first row. Strongly correlating QTL profiles could indicate common regulation.
Trait ID (count=40) Type Name Pearson's Correlation Coefficient Position Description
AT4G00740 gene QUA3 1.00 4:306869 Encodes a Golgi-localized type II membrane pectin methyltransferase regulating cell wall biosynthesis in suspension cells.
AT2G37550 gene AGD7 0.93 2:15755078 A member of ARF GAP domain (AGD)%2C A thaliana has 15 members%2C grouped into four classes.
AT2G35610 gene XEG113 0.93 2:14947343 Encodes an arabinosyltransferase that modifies extensin proteins in root hair cells.
AT1G17890 gene GER2 0.92 1:6154264 GER2%3B FUNCTIONS IN: coenzyme binding%2C binding%2C catalytic activity%3B INVOLVED IN: GDP-L-fucose biosynthetic process%2C cellular metabolic process%2C metabolic process%3B LOCATED IN: cellular_component unknown%3B EXPRESSED IN: 23 plant structures%3B EXPRESSED DURING: 13 growth stages%3B CONTAINS InterPro DOMAIN/s: NAD-dependent epimerase/dehydratase (InterPro:IPR001509)%2C NAD(P)-binding domain (InterPro:IPR016040)%3B BEST Arabidopsis thaliana protein match is: GDP-4-keto-6-deoxymannose-3%2C5-epimerase-4-reductase 1 (TAIR:AT1G73250.1)%3B Has 26865 Blast hits to 26861 proteins in 2796 species: Archae - 647%3B Bacteria - 15991%3B Metazoa - 493%3B Fungi - 205%3B Plants - 723%3B Viruses - 26%3B Other Eukaryotes - 8780 (source: NCBI BLink).
AT1G14830 gene DL1C 0.92 1:5107416 Encodes a dynamin-like protein that is involved in mitochondrial morphogenesis and pollen development. Protein is localized as speckles in the cytoplasm%2C partially co-localizes with mitochondrial markers%2C cell plate of dividing cells%2C and the tip of root hairs%2C root cap cells%2C and expanding part of trichoblasts.
AT5G34850 gene PAP26 0.92 5:13107626 Encodes a root-secreted purple acid phosphatase precursor involved in extracellular phosphate-scavenging.
AT3G14930 gene HEME1 0.92 3:5020461 HEME1%3B FUNCTIONS IN: uroporphyrinogen decarboxylase activity%3B INVOLVED IN: response to cadmium ion%3B LOCATED IN: chloroplast stroma%2C chloroplast%3B EXPRESSED IN: 23 plant structures%3B EXPRESSED DURING: 14 growth stages%3B CONTAINS InterPro DOMAIN/s: Uroporphyrinogen decarboxylase HemE (InterPro:IPR006361)%2C Uroporphyrinogen decarboxylase (URO-D) (InterPro:IPR000257)%3B BEST Arabidopsis thaliana protein match is: Uroporphyrinogen decarboxylase (TAIR:AT2G40490.1)%3B Has 7323 Blast hits to 7320 proteins in 2007 species: Archae - 103%3B Bacteria - 3942%3B Metazoa - 236%3B Fungi - 136%3B Plants - 121%3B Viruses - 0%3B Other Eukaryotes - 2785 (source: NCBI BLink).
AT5G62680 gene GTR2 0.91 5:25165137 Encodes a high-affinity%2C proton-dependent glucosinolate-specific transporter that is crucial for the transport of both methionine- and tryptophan-derived glucosinolates to seeds.
AT2G31370 gene 0.91 2:13378929 Basic-leucine zipper (bZIP) transcription factor family protein%3B CONTAINS InterPro DOMAIN/s: Basic-leucine zipper (bZIP) transcription factor (InterPro:IPR004827)%2C bZIP transcription factor%2C bZIP-1 (InterPro:IPR011616)%3B BEST Arabidopsis thaliana protein match is: Basic-leucine zipper (bZIP) transcription factor family protein (TAIR:AT1G06070.1)%3B Has 55870 Blast hits to 21504 proteins in 1137 species: Archae - 14%3B Bacteria - 3019%3B Metazoa - 20926%3B Fungi - 6116%3B Plants - 3494%3B Viruses - 436%3B Other Eukaryotes - 21865 (source: NCBI BLink).
AT3G62360 gene 0.91 3:23072746 Carbohydrate-binding-like fold%3B FUNCTIONS IN: carbohydrate binding%3B LOCATED IN: endoplasmic reticulum%2C plasma membrane%2C plant-type cell wall%3B EXPRESSED IN: 25 plant structures%3B EXPRESSED DURING: 13 growth stages%3B CONTAINS InterPro DOMAIN/s: Carbohydrate-binding-like fold (InterPro:IPR013784)%3B Has 321 Blast hits to 256 proteins in 98 species: Archae - 6%3B Bacteria - 117%3B Metazoa - 138%3B Fungi - 0%3B Plants - 33%3B Viruses - 0%3B Other Eukaryotes - 27 (source: NCBI BLink).
AT2G41540 gene GPDHC1 0.91 2:17325846 Encodes a protein with NAD-dependent glycerol-3-phosphate (G3P) dehydrogenase which was shown to complement an Escherichia coli strain: BB20-14%2C auxotrophic for glycerol/G3P due to a loss-of-function mutation in the gpsA gene.
AT1G28670 gene ARAB-1 0.91 1:10074359 Arabidopsis thaliana lipase
AT4G09650 gene ATPD 0.91 4:6100714 Encodes the chloroplast ATPase delta-subunit.
AT5G08690 gene 0.91 5:2825661 Encodes the mitochondrial ATP synthase beta-subunit. This subunit is encoded by a multigene family of three members (At5g08670%2C At5g08680%2C At5g08690) that shared 98%25 sequence identity at the amino acid level.
AT5G39320 gene UDG4 0.91 5:15742543 UDP-glucose 6-dehydrogenase family protein%3B FUNCTIONS IN: in 6 functions%3B INVOLVED IN: oxidation reduction%2C metabolic process%3B LOCATED IN: cytosol%2C nucleus%3B EXPRESSED IN: 24 plant structures%3B EXPRESSED DURING: 15 growth stages%3B CONTAINS InterPro DOMAIN/s: UDP-glucose/GDP-mannose dehydrogenase%2C N-terminal (InterPro:IPR001732)%2C 6-phosphogluconate dehydrogenase%2C C-terminal-like (InterPro:IPR008927)%2C UDP-glucose/GDP-mannose dehydrogenase%2C dimerisation and substrate-binding domain (InterPro:IPR014028)%2C UDP-glucose/GDP-mannose dehydrogenase%2C C-terminal (InterPro:IPR014027)%2C NAD(P)-binding domain (InterPro:IPR016040)%2C UDP-glucose/GDP-mannose dehydrogenase%2C dimerisation (InterPro:IPR014026)%2C Nucleotide sugar dehydrogenase (InterPro:IPR017476)%3B BEST Arabidopsis thaliana protein match is: UDP-glucose 6-dehydrogenase family protein (TAIR:AT3G29360.2)%3B Has 13476 Blast hits to 13452 proteins in 2147 species: Archae - 313%3B Bacteria - 7039%3B Metazoa - 213%3B Fungi - 97%3B Plants - 213%3B Viruses - 14%3B Other Eukaryotes - 5587 (source: NCBI BLink).
AT2G37080 gene RIP2 0.91 2:15581386 Encodes RIP2 (ROP interactive partner 2)%2C a putative Rho protein effector%2C interacting specifically with the active form of ROPs (Rho proteins of plants).
AT5G19690 gene STT3A 0.91 5:6652306 encodes an oligosaccharyl transferase involved response to high salt. Mutants are hypersensitive to high salt conditions
AT5G07460 gene PMSR2 0.91 5:2360630 ubiquitous enzyme that repairs oxidatively damaged proteins. Methionine sulfoxide reductase activity. Mutant lacking reductase activity showed increased protein oxidation%2C nitration and glycation of specific amino acid residues during darkness.
AT3G25040 gene ERD2B 0.91 3:9124270 Encodes ERD2b. a homolog of the yeast endoplasmic reticulum retention receptor ERD2. Mutations in ERD2b compromise EFR but not FLS2 signaling.
AT3G18390 gene EMB1865 0.91 3:6313471 embryo defective 1865 (EMB1865)%3B FUNCTIONS IN: RNA binding%3B INVOLVED IN: embryo development ending in seed dormancy%3B LOCATED IN: chloroplast%3B EXPRESSED IN: 22 plant structures%3B EXPRESSED DURING: 13 growth stages%3B CONTAINS InterPro DOMAIN/s: RNA-binding%2C CRM domain (InterPro:IPR001890)%3B BEST Arabidopsis thaliana protein match is: CRM family member 3B (TAIR:AT4G14510.1)%3B Has 1281 Blast hits to 1142 proteins in 135 species: Archae - 11%3B Bacteria - 10%3B Metazoa - 285%3B Fungi - 118%3B Plants - 447%3B Viruses - 43%3B Other Eukaryotes - 367 (source: NCBI BLink).
AT3G26710 gene CCB1 0.91 3:9813223 cofactor assembly of complex C (CCB1)%3B FUNCTIONS IN: molecular_function unknown%3B INVOLVED IN: cytochrome b6f complex assembly%3B LOCATED IN: chloroplast%3B EXPRESSED IN: 23 plant structures%3B EXPRESSED DURING: 13 growth stages%3B CONTAINS InterPro DOMAIN/s: Protein of unknown function DUF3529 (InterPro:IPR021919)%3B Has 212 Blast hits to 212 proteins in 63 species: Archae - 0%3B Bacteria - 77%3B Metazoa - 0%3B Fungi - 0%3B Plants - 48%3B Viruses - 0%3B Other Eukaryotes - 87 (source: NCBI BLink).
AT1G74020 gene SS2 0.90 1:27835123 Encodes AtSS-2 strictosidine synthase.
AT1G48230 gene 0.90 1:17805761 Nucleotide/sugar transporter family protein
AT1G61790 gene 0.90 1:22814216 Oligosaccharyltransferase complex/magnesium transporter family protein%3B FUNCTIONS IN: oligosaccharide transmembrane transporter activity%3B INVOLVED IN: biological_process unknown%3B LOCATED IN: endoplasmic reticulum%2C plasma membrane%2C chloroplast%3B EXPRESSED IN: 26 plant structures%3B EXPRESSED DURING: 15 growth stages%3B CONTAINS InterPro DOMAIN/s: Magnesium transporter protein 1 (InterPro:IPR006844)%2C Oligosaccharyltransferase complex/magnesium transporter (InterPro:IPR021149)%3B BEST Arabidopsis thaliana protein match is: Oligosaccharyltransferase complex/magnesium transporter family protein (TAIR:AT1G11560.1)%3B Has 387 Blast hits to 387 proteins in 136 species: Archae - 0%3B Bacteria - 0%3B Metazoa - 196%3B Fungi - 79%3B Plants - 91%3B Viruses - 0%3B Other Eukaryotes - 21 (source: NCBI BLink).
AT2G39780 gene RNS2 0.90 2:16591117 Encodes the main endoribonuclease activity in plant cells and localizes to the endoplasmic reticulum (ER)%2C ER-derived structures%2C and vacuoles. It is essential for normal ribosomal RNA recycling.
AT1G78900 gene VHA-A 0.90 1:29660088 Encodes catalytic subunit A of the vacuolar ATP synthase. Mutants are devoid of vacuolar ATPase activity as subunit A is encoded only by this gene and show strong defects in male gametophyte development and in Golgi stack morphology.
AT5G01800 gene 0.90 5:306939 saposin B domain-containing protein%3B FUNCTIONS IN: molecular_function unknown%3B INVOLVED IN: N-terminal protein myristoylation%2C lipid metabolic process%3B LOCATED IN: endomembrane system%3B EXPRESSED IN: 23 plant structures%3B EXPRESSED DURING: 15 growth stages%3B CONTAINS InterPro DOMAIN/s: Saposin B (InterPro:IPR008139)%2C Saposin-like (InterPro:IPR011001)%2C Saposin-like type B%2C 1 (InterPro:IPR007856)%2C Saposin-like type B%2C 2 (InterPro:IPR008138)%3B BEST Arabidopsis thaliana protein match is: saposin B domain-containing protein (TAIR:AT3G51730.1)%3B Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0%3B Bacteria - 0%3B Metazoa - 736%3B Fungi - 347%3B Plants - 385%3B Viruses - 0%3B Other Eukaryotes - 339 (source: NCBI BLink).
AT1G10670 gene ACLA-1 0.90 1:3535288 One of the three genes encoding subunit A of the trimeric protein ATP Citrate Lyase. Antisense ACLA-1 plants cause a reduction in cytosolic acetyl-CoA metabolism and have upregulation of stress-related genes and down-regulation of primary metabolism and growth genes%2C suggesting the mutation restricts normal growth and developmental processes and puts the plant into a state of stress.
AT2G44060 gene 0.90 2:18226263 Late embryogenesis abundant protein%2C group 2%3B FUNCTIONS IN: molecular_function unknown%3B INVOLVED IN: response to cadmium ion%2C response to desiccation%2C embryo development ending in seed dormancy%3B LOCATED IN: plasma membrane%2C membrane%3B EXPRESSED IN: 25 plant structures%3B EXPRESSED DURING: 14 growth stages%3B CONTAINS InterPro DOMAIN/s: Water stress and hypersensitive response domain (InterPro:IPR013990)%2C Late embryogenesis abundant protein%2C group 2 (InterPro:IPR004864)%3B BEST Arabidopsis thaliana protein match is: Late embryogenesis abundant protein (TAIR:AT1G01470.1)%3B Has 294 Blast hits to 286 proteins in 78 species: Archae - 4%3B Bacteria - 52%3B Metazoa - 0%3B Fungi - 0%3B Plants - 235%3B Viruses - 0%3B Other Eukaryotes - 3 (source: NCBI BLink).
AT3G07140 gene 0.90 3:2261104 GPI transamidase component Gpi16 subunit family protein%3B FUNCTIONS IN: GPI-anchor transamidase activity%3B INVOLVED IN: biological_process unknown%3B LOCATED IN: endoplasmic reticulum%3B EXPRESSED IN: 24 plant structures%3B EXPRESSED DURING: 13 growth stages%3B CONTAINS InterPro DOMAIN/s: Gpi16 subunit%2C GPI transamidase component (InterPro:IPR007245)%3B Has 383 Blast hits to 363 proteins in 146 species: Archae - 0%3B Bacteria - 0%3B Metazoa - 164%3B Fungi - 131%3B Plants - 68%3B Viruses - 0%3B Other Eukaryotes - 20 (source: NCBI BLink).
AT4G23710 gene VAG2 0.90 4:12349926 vacuolar ATP synthase subunit G2 (VAG2)%3B FUNCTIONS IN: hydrolase activity%2C acting on acid anhydrides%2C catalyzing transmembrane movement of substances%3B INVOLVED IN: proton transport%3B LOCATED IN: plasma membrane%2C vacuole%3B EXPRESSED IN: 25 plant structures%3B EXPRESSED DURING: 15 growth stages%3B CONTAINS InterPro DOMAIN/s: Vacuolar (H+)-ATPase G subunit (InterPro:IPR005124)%3B BEST Arabidopsis thaliana protein match is: vacuolar membrane ATPase 10 (TAIR:AT3G01390.2)%3B Has 639 Blast hits to 639 proteins in 196 species: Archae - 2%3B Bacteria - 5%3B Metazoa - 338%3B Fungi - 118%3B Plants - 124%3B Viruses - 0%3B Other Eukaryotes - 52 (source: NCBI BLink).
AT1G32200 gene ATS1 0.90 1:11601671 Encodes a chloroplast glycerol-3-phosphate acyltransferase.Involved in the biosynthesis of chloroplast phosphatidylglycerol.
AT5G64030 gene 0.90 5:25623952 S-adenosyl-L-methionine-dependent methyltransferases superfamily protein%3B CONTAINS InterPro DOMAIN/s: Protein of unknown function DUF248%2C methyltransferase putative (InterPro:IPR004159)%3B BEST Arabidopsis thaliana protein match is: S-adenosyl-L-methionine-dependent methyltransferases superfamily protein (TAIR:AT1G29470.2)%3B Has 79879 Blast hits to 39720 proteins in 2025 species: Archae - 377%3B Bacteria - 14382%3B Metazoa - 24757%3B Fungi - 8186%3B Plants - 4300%3B Viruses - 653%3B Other Eukaryotes - 27224 (source: NCBI BLink).
AT2G44040 gene 0.90 2:18221694 Dihydrodipicolinate reductase%2C bacterial/plant%3B FUNCTIONS IN: dihydrodipicolinate reductase activity%3B INVOLVED IN: oxidation reduction%2C lysine biosynthetic process via diaminopimelate%2C metabolic process%2C diaminopimelate biosynthetic process%3B LOCATED IN: chloroplast%3B EXPRESSED IN: cotyledon%3B CONTAINS InterPro DOMAIN/s: Dihydrodipicolinate reductase%2C C-terminal (InterPro:IPR022663)%2C NAD(P)-binding domain (InterPro:IPR016040)%2C Dihydrodipicolinate reductase%2C plant (InterPro:IPR011859)%2C Dihydrodipicolinate reductase%2C bacterial/plant (InterPro:IPR011770)%2C Dihydrodipicolinate reductase%2C N-terminal (InterPro:IPR000846)%3B BEST Arabidopsis thaliana protein match is: Dihydrodipicolinate reductase%2C bacterial/plant (TAIR:AT3G59890.1)%3B Has 3366 Blast hits to 3365 proteins in 1356 species: Archae - 124%3B Bacteria - 2714%3B Metazoa - 2%3B Fungi - 0%3B Plants - 79%3B Viruses - 0%3B Other Eukaryotes - 447 (source: NCBI BLink).
AT4G34720 gene AVA-P1 0.90 4:16567792 vacuolar H+-pumping ATPase 16 kDa proteolipid (ava-p1)
AT5G35360 gene CAC2 0.90 5:13584104 Encodes biotin carboxylase subunit (CAC2).
AT2G26080 gene GLDP2 0.90 2:11109003 glycine decarboxylase P-protein 2 (GLDP2)%3B FUNCTIONS IN: glycine dehydrogenase (decarboxylating) activity%2C ATP binding%3B INVOLVED IN: oxidation reduction%2C glycine decarboxylation via glycine cleavage system%2C glycine metabolic process%3B LOCATED IN: mitochondrion%2C glycine cleavage complex%2C chloroplast%2C chloroplast envelope%3B EXPRESSED IN: 33 plant structures%3B EXPRESSED DURING: 16 growth stages%3B CONTAINS InterPro DOMAIN/s: Pyridoxal phosphate-dependent transferase%2C major domain (InterPro:IPR015424)%2C Glycine cleavage system P-protein-like (InterPro:IPR020581)%2C Glycine cleavage system P-protein (InterPro:IPR003437)%2C Pyridoxal phosphate-dependent transferase%2C major region%2C subdomain 1 (InterPro:IPR015421)%2C Glycine cleavage system P-protein%2C N-terminal (InterPro:IPR020580)%3B BEST Arabidopsis thaliana protein match is: glycine decarboxylase P-protein 1 (TAIR:AT4G33010.1)%3B Has 12461 Blast hits to 11458 proteins in 1938 species: Archae - 256%3B Bacteria - 5279%3B Metazoa - 139%3B Fungi - 214%3B Plants - 99%3B Viruses - 0%3B Other Eukaryotes - 6474 (source: NCBI BLink).
AT5G26742 gene emb1138 0.90 5:9284557 embryo defective 1138 (emb1138)%3B FUNCTIONS IN: in 6 functions%3B INVOLVED IN: embryo development ending in seed dormancy%3B LOCATED IN: chloroplast%2C chloroplast stroma%2C membrane%3B EXPRESSED IN: guard cell%2C leaf%3B CONTAINS InterPro DOMAIN/s: RNA helicase%2C DEAD-box type%2C Q motif (InterPro:IPR014014)%2C DNA/RNA helicase%2C DEAD/DEAH box type%2C N-terminal (InterPro:IPR011545)%2C GUCT (InterPro:IPR012562)%2C DEAD-like helicase%2C N-terminal (InterPro:IPR014001)%2C DNA/RNA helicase%2C C-terminal (InterPro:IPR001650)%2C Zinc finger%2C CCHC-type (InterPro:IPR001878)%2C Helicase%2C superfamily 1/2%2C ATP-binding domain (InterPro:IPR014021)%3B BEST Arabidopsis thaliana protein match is: putative mitochondrial RNA helicase 2 (TAIR:AT3G22330.1)%3B Has 62677 Blast hits to 60420 proteins in 3357 species: Archae - 1370%3B Bacteria - 33239%3B Metazoa - 8033%3B Fungi - 5520%3B Plants - 3292%3B Viruses - 108%3B Other Eukaryotes - 11115 (source: NCBI BLink).
AT5G04530 gene KCS19 0.90 5:1291630 Encodes KCS19%2C a member of the 3-ketoacyl-CoA synthase family involved in the biosynthesis of VLCFA (very long chain fatty acids).
AT3G62120 gene 0.90 3:23001030 Class II aaRS and biotin synthetases superfamily protein%3B FUNCTIONS IN: proline-tRNA ligase activity%2C aminoacyl-tRNA ligase activity%2C nucleotide binding%2C ATP binding%3B INVOLVED IN: prolyl-tRNA aminoacylation%2C translation%2C tRNA aminoacylation for protein translation%3B LOCATED IN: membrane%3B EXPRESSED IN: 22 plant structures%3B EXPRESSED DURING: 13 growth stages%3B CONTAINS InterPro DOMAIN/s: Aminoacyl-tRNA synthetase%2C class II (G/ H/ P/ S)%2C conserved domain (InterPro:IPR002314)%2C Prolyl-tRNA synthetase%2C class IIa%2C prokaryotic-type (InterPro:IPR004499)%2C Prolyl-tRNA synthetase%2C class II%2C C-terminal (InterPro:IPR016061)%2C Anticodon-binding (InterPro:IPR004154)%2C Prolyl-tRNA synthetase%2C class II (InterPro:IPR017449)%2C Prolyl-tRNA synthetase%2C class IIa%2C conserved region (InterPro:IPR002316)%2C Aminoacyl-tRNA synthetase%2C class II%2C conserved domain (InterPro:IPR006195)%3B BEST Arabidopsis thaliana protein match is: Class II aaRS and biotin synthetases superfamily protein (TAIR:AT5G52520.1)%3B Has 9240 Blast hits to 8990 proteins in 2633 species: Archae - 270%3B Bacteria - 6522%3B Metazoa - 295%3B Fungi - 194%3B Plants - 105%3B Viruses - 0%3B Other Eukaryotes - 1854 (source: NCBI BLink).
GO domain Definition P-value
carbohydrate derivative biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of carbohydrate derivative." [GOC:TermGenie] 2.58e-07
Golgi apparatus cellular_component "A compound membranous cytoplasmic organelle of eukaryotic cells, consisting of flattened, ribosome-free vesicles arranged in a more or less regular stack. The Golgi apparatus differs from the endoplasmic reticulum in often having slightly thicker membranes, appearing in sections as a characteristic shallow semicircle so that the convex side (cis or entry face) abuts the endoplasmic reticulum, secretory vesicles emerging from the concave side (trans or exit face). In vertebrate cells there is usually one such organelle, while in invertebrates and plants, where they are known usually as dictyosomes, there may be several scattered in the cytoplasm. The Golgi apparatus processes proteins produced on the ribosomes of the rough endoplasmic reticulum; such processing includes modification of the core oligosaccharides of glycoproteins, and the sorting and packaging of proteins for transport to a variety of cellular locations. Three different regions of the Golgi are now recognized both in terms of structure and function: cis, in the vicinity of the cis face, trans, in the vicinity of the trans face, and medial, lying between the cis and trans regions." [ISBN:0198506732] 3.13e-07
proton transport biological_process "The directed movement of protons (hydrogen ions) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:jl] 1.49e-05
membrane cellular_component "A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it." [GOC:dos, GOC:mah, ISBN:0815316194] 2.29e-04
vacuolar membrane cellular_component "The lipid bilayer surrounding the vacuole and separating its contents from the cytoplasm of the cell." [GOC:ai] 2.35e-04
nucleoside phosphate metabolic process biological_process "The chemical reactions and pathways involving any phosphorylated nucleoside." [GOC:mah] 2.35e-04
nucleotide metabolic process biological_process "The chemical reactions and pathways involving a nucleotide, a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the glycose moiety; may be mono-, di- or triphosphate; this definition includes cyclic nucleotides (nucleoside cyclic phosphates)." [GOC:ma] 2.35e-04
nucleotide biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of nucleotides, any nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the glycose moiety; may be mono-, di- or triphosphate; this definition includes cyclic-nucleotides (nucleoside cyclic phosphates)." [GOC:go_curators] 2.35e-04
phosphorus metabolic process biological_process "The chemical reactions and pathways involving the nonmetallic element phosphorus or compounds that contain phosphorus, usually in the form of a phosphate group (PO4)." [GOC:ai] 2.63e-04
chloroplast cellular_component "A chlorophyll-containing plastid with thylakoids organized into grana and frets, or stroma thylakoids, and embedded in a stroma." [ISBN:0471245208] 2.63e-04
ATP hydrolysis coupled proton transport biological_process "The transport of protons against an electrochemical gradient, using energy from ATP hydrolysis." [GOC:mah, GOC:vw] 3.07e-04
hydrogen ion transmembrane transport biological_process "The directed movement of hydrogen ion (proton) across a membrane." [GO_REF:0000069, GOC:pr, GOC:TermGenie] 4.41e-04
phosphate-containing compound metabolic process biological_process "The chemical reactions and pathways involving the phosphate group, the anion or salt of any phosphoric acid." [GOC:ai] 1.06e-03
cytosol cellular_component "The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes." [GOC:hgd, GOC:jl] 1.15e-03
protein glycosylation biological_process "A protein modification process that results in the addition of a carbohydrate or carbohydrate derivative unit to a protein amino acid, e.g. the addition of glycan chains to proteins." [GOC:curators, GOC:pr] 1.28e-03
cation transport biological_process "The directed movement of cations, atoms or small molecules with a net positive charge, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] 1.72e-03
purine ribonucleotide metabolic process biological_process "The chemical reactions and pathways involving a purine ribonucleotide, a compound consisting of ribonucleoside (a purine base linked to a ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar." [GOC:go_curators, ISBN:0198506732] 1.72e-03
purine ribonucleotide biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of a purine ribonucleotide, a compound consisting of ribonucleoside (a purine base linked to a ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar." [GOC:go_curators, ISBN:0198506732] 1.72e-03
NAD binding molecular_function "Interacting selectively and non-covalently with nicotinamide adenine dinucleotide, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NAD+, or the reduced form, NADH." [GOC:ai] 1.72e-03
vacuole cellular_component "A closed structure, found only in eukaryotic cells, that is completely surrounded by unit membrane and contains liquid material. Cells contain one or several vacuoles, that may have different functions from each other. Vacuoles have a diverse array of functions. They can act as a storage organelle for nutrients or waste products, as a degradative compartment, as a cost-effective way of increasing cell size, and as a homeostatic regulator controlling both turgor pressure and pH of the cytosol." [GOC:mtg_sensu, ISBN:0198506732] 1.75e-03
purine nucleotide metabolic process biological_process "The chemical reactions and pathways involving a purine nucleotide, a compound consisting of nucleoside (a purine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar." [GOC:go_curators, ISBN:0198506732] 1.75e-03
purine nucleotide biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of a purine nucleotide, a compound consisting of nucleoside (a purine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar." [GOC:go_curators, ISBN:0198506732] 1.75e-03
ribonucleotide metabolic process biological_process "The chemical reactions and pathways involving a ribonucleotide, a compound consisting of ribonucleoside (a base linked to a ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar." [GOC:go_curators, ISBN:0198506732] 1.75e-03
ion transmembrane transport biological_process "A process in which an ion is transported from one side of a membrane to the other by means of some agent such as a transporter or pore." [GOC:mah] 1.75e-03
isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway biological_process "The chemical reactions and pathways resulting in the formation of isopentenyl diphosphate by the mevalonate-independent pathway. Isopentenyl diphosphate (IPP) is the fundamental unit in isoprenoid biosynthesis and is biosynthesized from pyruvate and glyceraldehyde 3-phosphate via intermediates, including 1-deoxy-D-xylulose 5-phosphate." [GOC:go_curators, MetaCyc:NONMEVIPP-PWY, PMID:18948055] 2.07e-03
ion transport biological_process "The directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] 2.12e-03
endoplasmic reticulum cellular_component "The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached)." [ISBN:0198506732] 2.15e-03
cation transmembrane transport biological_process "A process in which a cation is transported from one side of a membrane to the other by means of some agent such as a transporter or pore." [GOC:dos, GOC:vw] 2.15e-03
nucleoside metabolic process biological_process "The chemical reactions and pathways involving a nucleoside, a nucleobase linked to either beta-D-ribofuranose (a ribonucleoside) or 2-deoxy-beta-D-ribofuranose, (a deoxyribonucleoside), e.g. adenosine, guanosine, inosine, cytidine, uridine and deoxyadenosine, deoxyguanosine, deoxycytidine and thymidine (= deoxythymidine)." [GOC:ma] 2.42e-03
chlorophyll biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of chlorophyll, any compound of magnesium complexed in a porphyrin (tetrapyrrole) ring and which functions as a photosynthetic pigment, from less complex precursors." [GOC:jl] 2.42e-03
biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones." [GOC:curators, ISBN:0198547684] 2.63e-03
trans-Golgi network cellular_component "The network of interconnected tubular and cisternal structures located within the Golgi apparatus on the side distal to the endoplasmic reticulum, from which secretory vesicles emerge. The trans-Golgi network is important in the later stages of protein secretion where it is thought to play a key role in the sorting and targeting of secreted proteins to the correct destination." [GOC:vw, ISBN:0815316194] 3.21e-03
lipid metabolic process biological_process "The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids." [GOC:ma] 3.78e-03
carboxylic acid metabolic process biological_process "The chemical reactions and pathways involving carboxylic acids, any organic acid containing one or more carboxyl (COOH) groups or anions (COO-)." [ISBN:0198506732] 3.95e-03
thylakoid membrane organization biological_process "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the thylakoid membrane." [GOC:dph, GOC:jl, GOC:mah, GOC:tb] 4.03e-03
cellular biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:jl] 4.03e-03
endosome cellular_component "A membrane-bounded organelle to which materials ingested by endocytosis are delivered." [ISBN:0198506732, PMID:19696797] 4.33e-03
chloroplast envelope cellular_component "The double lipid bilayer enclosing the chloroplast and separating its contents from the rest of the cytoplasm; includes the intermembrane space." [GOC:tb] 4.38e-03
ATP metabolic process biological_process "The chemical reactions and pathways involving ATP, adenosine triphosphate, a universally important coenzyme and enzyme regulator." [GOC:go_curators] 4.98e-03
lipid biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent." [GOC:go_curators] 5.79e-03
response to abiotic stimulus biological_process "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an abiotic (non-living) stimulus." [GOC:hb] 6.08e-03
ATP biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator." [GOC:go_curators, ISBN:0198506732] 6.99e-03
carbohydrate metabolic process biological_process "The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule." [GOC:mah, ISBN:0198506732] 7.72e-03
nucleoside triphosphate biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of a nucleoside triphosphate, a compound consisting of a nucleobase linked to a deoxyribose or ribose sugar esterified with triphosphate on the sugar." [GOC:go_curators, ISBN:0198506732] 8.51e-03
acetyl-CoA metabolic process biological_process "The chemical reactions and pathways involving acetyl-CoA, a derivative of coenzyme A in which the sulfhydryl group is acetylated; it is a metabolite derived from several pathways (e.g. glycolysis, fatty acid oxidation, amino-acid catabolism) and is further metabolized by the tricarboxylic acid cycle. It is a key intermediate in lipid and terpenoid biosynthesis." [ISBN:0198547684] 1.03e-02
acyl-CoA metabolic process biological_process "The chemical reactions and pathways involving acyl-CoA, any derivative of coenzyme A in which the sulfhydryl group is in thiolester linkage with an acyl group." [ISBN:0198506732] 1.06e-02
nucleotide-sugar biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of nucleotide-sugars, any nucleotide in which the distal phosphoric residue of a nucleoside 5'-diphosphate is in glycosidic linkage with a monosaccharide or monosaccharide derivative." [ISBN:0198506732] 1.09e-02
fatty acid biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of a fatty acid, any of the aliphatic monocarboxylic acids that can be liberated by hydrolysis from naturally occurring fats and oils. Fatty acids are predominantly straight-chain acids of 4 to 24 carbon atoms, which may be saturated or unsaturated; branched fatty acids and hydroxy fatty acids also occur, and very long chain acids of over 30 carbons are found in waxes." [GOC:mah, ISBN:0198506732] 1.26e-02
purine ribonucleoside monophosphate biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of purine ribonucleoside monophosphate, a compound consisting of a purine base linked to a ribose sugar esterified with phosphate on the sugar." [GOC:go_curators, ISBN:0198506732] 1.26e-02
small molecule biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of small molecules, any low molecular weight, monomeric, non-encoded molecule." [GOC:curators, GOC:pde, GOC:vw] 1.26e-02
cofactor biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of a cofactor, a substance that is required for the activity of an enzyme or other protein." [GOC:ai] 1.36e-02
transmembrane transport biological_process "The process in which a solute is transported from one side of a membrane to the other." [GOC:dph, GOC:jid] 1.36e-02
oxidation-reduction process biological_process "A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons." [GOC:dhl, GOC:ecd, GOC:jh2, GOC:jid, GOC:mlg, GOC:rph] 1.57e-02
oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor molecular_function "Catalysis of an oxidation-reduction (redox) reaction in which a CH-OH group acts as a hydrogen or electron donor and reduces NAD+ or NADP." [EC:1.1.1.-, GOC:ai] 1.58e-02
nucleotide-sugar metabolic process biological_process "The cellular chemical reactions and pathways involving nucleotide-sugars, any nucleotide in which the distal phosphoric residue of a nucleoside 5'-diphosphate is in glycosidic linkage with a monosaccharide or monosaccharide derivative." [ISBN:0198506732] 1.73e-02
ribonucleoside monophosphate biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of a ribonucleoside monophosphate, a compound consisting of a nucleobase linked to a ribose sugar esterified with phosphate on the sugar." [GOC:go_curators, ISBN:0198506732] 1.76e-02
glycerophospholipid biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of glycerophospholipids, any derivative of glycerophosphate that contains at least one O-acyl, O-alkyl, or O-alkenyl group attached to the glycerol residue." [ISBN:0198506732] 1.85e-02
porphyrin-containing compound biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of any member of a large group of derivatives or analogs of porphyrin. Porphyrin consists of a ring of four pyrrole nuclei linked each to the next at their alpha positions through a methine group." [GOC:jl, ISBN:0198506732] 2.07e-02
carotenoid biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of carotenoids, tetraterpenoid compounds in which two units of 4 isoprenoid residues joined head-to-tail are themselves joined tail-to-tail." [GOC:go_curators] 2.19e-02
tetrapyrrole biosynthetic process biological_process "The chemical reactions and pathways leading to the formation of tetrapyrroles, natural pigments containing four pyrrole rings joined by one-carbon units linking position 2 of one pyrrole ring to position 5 of the next." [CHEBI:26932, GOC:mah] 2.19e-02
acid phosphatase activity molecular_function "Catalysis of the reaction: an orthophosphoric monoester + H2O = an alcohol + phosphate, with an acid pH optimum." [EC:3.1.3.2] 2.25e-02
S-adenosylmethionine-dependent methyltransferase activity molecular_function "Catalysis of the transfer of a methyl group from S-adenosyl-L-methionine to a substrate." [GOC:mah] 2.25e-02
transport biological_process "The directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter or pore." [GOC:dph, GOC:jl, GOC:mah] 2.32e-02
fatty acid metabolic process biological_process "The chemical reactions and pathways involving fatty acids, aliphatic monocarboxylic acids liberated from naturally occurring fats and oils by hydrolysis." [ISBN:0198547684] 2.36e-02
photosystem II assembly biological_process "The aggregation, arrangement and bonding together of a set of components to form a photosystem II complex on the thylakoid membrane. The photosystem II complex consists of at least 20 polypeptides and around 80 cofactors in most organisms." [GOC:aa, GOC:pz] 2.53e-02
chlorophyll metabolic process biological_process "The chemical reactions and pathways involving chlorophyll, any compound of magnesium complexed in a porphyrin (tetrapyrrole) ring and which functions as a photosynthetic pigment." [GOC:jl] 2.56e-02
localization biological_process "Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported to or maintained in a specific location." [GOC:ai] 2.78e-02
protein N-linked glycosylation biological_process "A protein glycosylation process in which a carbohydrate or carbohydrate derivative unit is added to a protein via the N4 atom of peptidyl-asparagine, the omega-N of arginine, or the N1' atom peptidyl-tryptophan." [GOC:pr, RESID:AA0151, RESID:AA0156, RESID:AA0327] 2.81e-02
embryo development biological_process "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant." [GOC:go_curators, GOC:isa_complete, GOC:mtg_sensu] 3.02e-02
Golgi membrane cellular_component "The lipid bilayer surrounding any of the compartments of the Golgi apparatus." [GOC:mah] 3.12e-02
porphyrin-containing compound metabolic process biological_process "The chemical reactions and pathways involving any member of a large group of derivatives or analogs of porphyrin. Porphyrins consists of a ring of four pyrrole nuclei linked each to the next at their alpha positions through a methine group." [GOC:jl, ISBN:0198506732] 3.12e-02
glycerolipid biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of glycerolipids, any lipid with a glycerol backbone." [GOC:ai] 3.12e-02
chloroplast stroma cellular_component "The space enclosed by the double membrane of a chloroplast but excluding the thylakoid space. It contains DNA, ribosomes and some temporary products of photosynthesis." [ISBN:0198547684] 3.54e-02
starch biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of starch, the most important reserve polysaccharide in plants." [GOC:ai] 3.68e-02
glycerophospholipid metabolic process biological_process "The chemical reactions and pathways involving glycerophospholipids, any derivative of glycerophosphate that contains at least one O-acyl, O-alkyl, or O-alkenyl group attached to the glycerol residue." [ISBN:0198506732] 4.23e-02
plasmodesma cellular_component "A fine cytoplasmic channel, found in all higher plants, that connects the cytoplasm of one cell to that of an adjacent cell." [ISBN:0198506732] 4.39e-02
phospholipid biosynthetic process biological_process "The chemical reactions and pathways resulting in the formation of phospholipids, any lipid containing phosphoric acid as a mono- or diester." [ISBN:0198506732] 4.71e-02
ncRNA metabolic process biological_process "The chemical reactions and pathways involving non-coding RNA transcripts (ncRNAs)." [GOC:mah] 4.71e-02