Sequence Description Alias PCC hrr evm.model.contig_430.2 (at5g67320 : 253.0) Encodes a WD-40 protein involved in histone deacetylation in response to abiotic stress.Identified in a screen for mutations with altered expression of stress induced genes. Functions as a repressor of cold tolerance induced genes. Loss of function mutants are hypersensitive to freezing.; high expression of osmotically responsive genes 15 (HOS15); CONTAINS InterPro DOMAIN/s: WD40 repeat 2 (InterPro:IPR019782), LisH dimerisation motif, subgroup (InterPro:IPR013720), WD40 repeat, conserved site (InterPro:IPR019775), WD40 repeat (InterPro:IPR001680), G-protein beta WD-40 repeat, region (InterPro:IPR020472), WD40 repeat-like-containing domain (InterPro:IPR011046), WD40-repeat-containing domain (InterPro:IPR017986), WD40/YVTN repeat-like-containing domain (InterPro:IPR015943), LisH dimerisation motif (InterPro:IPR006594), WD40 repeat, subgroup (InterPro:IPR019781); BEST Arabidopsis thaliana protein match is: TBP-associated factor 5 (TAIR:AT5G25150.1); Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0; Bacteria - 0; Metazoa - 736; Fungi - 347; Plants - 385; Viruses - 0; Other Eukaryotes - 339 (source: NCBI BLink). & (p93107|pf20_chlre : 93.6) Flagellar WD repeat protein PF20 - Chlamydomonas reinhardtii & (reliability: 506.0) & (original description: no original description) 0.9506288684197515 8 evm.model.contig_571.2 (at5g40850 : 97.8) Encodes a urophorphyrin III methylase that catalyzes S-adenosyl-L-methionine-dependent transmethylation in a multistep process involving the formation of a covalently linked complex with S-adenosyl-L-methionine.; urophorphyrin methylase 1 (UPM1); CONTAINS InterPro DOMAIN/s: Tetrapyrrole methylase (InterPro:IPR000878), Tetrapyrrole methylase, subdomain 1 (InterPro:IPR014777), Uroporphyrin-III C-methyltransferase, C-terminal (InterPro:IPR006366), Tetrapyrrole methylase, subdomain 2 (InterPro:IPR014776), Uroporphiryn-III C-methyltransferase, conserved site (InterPro:IPR003043). & (reliability: 195.6) & (original description: no original description) 0.9501577767645084 2 evm.model.contig_3441.6 no hits & (original description: no original description) 0.9472573179982124 3 evm.model.contig_2132.13 no hits & (original description: no original description) 0.9445982012344245 16 evm.model.contig_527.22 (original description: no original description) 0.9428158124024937 5 evm.model.contig_534.3 no hits & (original description: no original description) 0.9411877608141744 15 evm.model.contig_2136.5 (at2g01720 : 90.1) Ribophorin I; FUNCTIONS IN: oligosaccharyl transferase activity, dolichyl-diphosphooligosaccharide-protein glycotransferase activity; INVOLVED IN: protein amino acid glycosylation; LOCATED IN: endoplasmic reticulum, plasma membrane, plant-type cell wall; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Ribophorin I (InterPro:IPR007676); BEST Arabidopsis thaliana protein match is: Ribophorin I (TAIR:AT1G76400.1); Has 386 Blast hits to 386 proteins in 178 species: Archae - 0; Bacteria - 0; Metazoa - 143; Fungi - 127; Plants - 63; Viruses - 0; Other Eukaryotes - 53 (source: NCBI BLink). & (gnl|cdd|68872 : 88.9) no description available & (reliability: 180.2) & (original description: no original description) 0.9391109268662965 11 evm.model.contig_3558.10 no hits & (original description: no original description) 0.9389932103390335 28 evm.model.contig_693.11 (at4g29830 : 103.0) The protein is composed of repeats of WD motif which is involved in protein complex formation. The gene is involved in flower timing and flower development. This gene is predicted to encode a protein with a DWD motif. It can bind to DDB1a in Y2H assays, and DDB1b in co-IP assays, and may be involved in the formation of a CUL4-based E3 ubiquitin ligase. Loss of gene function leads to a redistribution of H3K4me3 and K3K36me2 modifications within genes but not a change in the overall abundance of these modifications within chromatin.; vernalization independence 3 (VIP3); FUNCTIONS IN: protein binding, nucleotide binding; INVOLVED IN: histone H3-K4 methylation, histone H3-K36 methylation, negative regulation of flower development; LOCATED IN: CUL4 RING ubiquitin ligase complex, heterotrimeric G-protein complex; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: WD40 repeat 2 (InterPro:IPR019782), WD40 repeat, conserved site (InterPro:IPR019775), WD40 repeat (InterPro:IPR001680), G-protein beta WD-40 repeat, region (InterPro:IPR020472), WD40 repeat-like-containing domain (InterPro:IPR011046), WD40-repeat-containing domain (InterPro:IPR017986), WD40/YVTN repeat-like-containing domain (InterPro:IPR015943), WD40 repeat, subgroup (InterPro:IPR019781); BEST Arabidopsis thaliana protein match is: WD-40 repeat family protein / small nuclear ribonucleoprotein Prp4p-related (TAIR:AT2G41500.1); Has 81424 Blast hits to 33679 proteins in 849 species: Archae - 94; Bacteria - 9736; Metazoa - 32144; Fungi - 18699; Plants - 10476; Viruses - 0; Other Eukaryotes - 10275 (source: NCBI BLink). & (reliability: 206.0) & (original description: no original description) 0.9364830556698014 20 evm.model.contig_3555.4 no hits & (original description: no original description) 0.9342993379146224 10 evm.model.contig_4515.2 (at4g33370 : 389.0) DEA(D/H)-box RNA helicase family protein; FUNCTIONS IN: helicase activity, zinc ion binding, ATP-dependent helicase activity, ATP binding, nucleic acid binding; LOCATED IN: cellular_component unknown; CONTAINS InterPro DOMAIN/s: RNA helicase, DEAD-box type, Q motif (InterPro:IPR014014), DNA/RNA helicase, DEAD/DEAH box type, N-terminal (InterPro:IPR011545), DEAD-like helicase, N-terminal (InterPro:IPR014001), Zinc finger, CCHC-type (InterPro:IPR001878), DNA/RNA helicase, C-terminal (InterPro:IPR001650), Helicase, superfamily 1/2, ATP-binding domain (InterPro:IPR014021); BEST Arabidopsis thaliana protein match is: DEAD-box protein abstrakt, putative (TAIR:AT5G51280.1); Has 45034 Blast hits to 44312 proteins in 3130 species: Archae - 817; Bacteria - 23057; Metazoa - 6215; Fungi - 4847; Plants - 2647; Viruses - 8; Other Eukaryotes - 7443 (source: NCBI BLink). & (p46942|db10_nicsy : 196.0) ATP-dependent RNA helicase-like protein DB10 (EC 3.6.1.-) - Nicotiana sylvestris (Wood tobacco) & (reliability: 778.0) & (original description: no original description) 0.9322291297663449 11 evm.model.contig_4506.4 (at4g24040 : 240.0) Encodes a trehalase, member of Glycoside Hydrolase Family 37.; trehalase 1 (TRE1); CONTAINS InterPro DOMAIN/s: Glycoside hydrolase, family 37 (InterPro:IPR001661), Six-hairpin glycosidase-like (InterPro:IPR008928), Glycoside hydrolase, family 37, conserved site (InterPro:IPR018232); Has 1925 Blast hits to 1909 proteins in 569 species: Archae - 2; Bacteria - 1056; Metazoa - 507; Fungi - 235; Plants - 71; Viruses - 0; Other Eukaryotes - 54 (source: NCBI BLink). & (reliability: 480.0) & (original description: no original description) 0.9318850727295749 12 evm.model.contig_3512.2 (at1g62020 : 1115.0) Coatomer, alpha subunit; FUNCTIONS IN: structural molecule activity, transporter activity; INVOLVED IN: intracellular protein transport, vesicle-mediated transport, ER to Golgi vesicle-mediated transport; LOCATED IN: COPI vesicle coat, plasma membrane, CUL4 RING ubiquitin ligase complex, membrane; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: WD40 repeat 2 (InterPro:IPR019782), Coatomer, WD associated region (InterPro:IPR006692), WD40 repeat, conserved site (InterPro:IPR019775), Cytochrome cd1-nitrite reductase-like, C-terminal haem d1 (InterPro:IPR011048), WD40 repeat (InterPro:IPR001680), G-protein beta WD-40 repeat, region (InterPro:IPR020472), WD40 repeat-like-containing domain (InterPro:IPR011046), WD40-repeat-containing domain (InterPro:IPR017986), WD40/YVTN repeat-like-containing domain (InterPro:IPR015943), Coatomer, alpha subunit (InterPro:IPR016391), WD40 repeat, subgroup (InterPro:IPR019781), Coatomer, alpha subunit, C-terminal (InterPro:IPR010714); BEST Arabidopsis thaliana protein match is: Coatomer, alpha subunit (TAIR:AT2G21390.1); Has 77998 Blast hits to 29937 proteins in 781 species: Archae - 58; Bacteria - 8535; Metazoa - 32327; Fungi - 16718; Plants - 10020; Viruses - 0; Other Eukaryotes - 10340 (source: NCBI BLink). & (p93107|pf20_chlre : 110.0) Flagellar WD repeat protein PF20 - Chlamydomonas reinhardtii & (reliability: 2230.0) & (original description: no original description) 0.9310176279843929 60 evm.model.contig_461.2 no hits & (original description: no original description) 0.9307265729275251 14 evm.model.contig_732.2 (at3g08980 : 84.0) Peptidase S24/S26A/S26B/S26C family protein; FUNCTIONS IN: serine-type peptidase activity, peptidase activity; INVOLVED IN: proteolysis; LOCATED IN: membrane; EXPRESSED IN: 20 plant structures; EXPRESSED DURING: 10 growth stages; CONTAINS InterPro DOMAIN/s: Peptidase S24/S26A/S26B/S26C, beta-ribbon domain (InterPro:IPR011056), Peptidase S24/S26A/S26B, conserved region (InterPro:IPR019759), Peptidase S24/S26A/S26B/S26C (InterPro:IPR015927), Peptidase S26A, signal peptidase I (InterPro:IPR000223); BEST Arabidopsis thaliana protein match is: Peptidase S24/S26A/S26B/S26C family protein (TAIR:AT1G53530.1); Has 4114 Blast hits to 4113 proteins in 1108 species: Archae - 0; Bacteria - 2962; Metazoa - 240; Fungi - 231; Plants - 274; Viruses - 0; Other Eukaryotes - 407 (source: NCBI BLink). & (reliability: 168.0) & (original description: no original description) 0.9285002225995859 15 evm.model.contig_2422.1 no hits & (original description: no original description) 0.9275205884645277 16 evm.model.contig_2506.3 no hits & (original description: no original description) 0.9273927061409123 56 evm.model.contig_3482.2 (at3g45830 : 159.0) unknown protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; BEST Arabidopsis thaliana protein match is: unknown protein (TAIR:AT1G02290.1); Has 499 Blast hits to 438 proteins in 100 species: Archae - 0; Bacteria - 7; Metazoa - 236; Fungi - 15; Plants - 108; Viruses - 2; Other Eukaryotes - 131 (source: NCBI BLink). & (reliability: 318.0) & (original description: no original description) 0.9261061325222989 18 evm.model.contig_441.8 no hits & (original description: no original description) 0.9257081925603773 25 evm.model.contig_3423.32 (at3g10370 : 160.0) mitochondrial FAD-dependent glycerol-3-phosphate dehydrogenase. possibly involved in storage lipid catabolism and glycerol assimilation, and in glycerol-3-phosphate shuttle which transports reducing power from cytosol to mitochondrion.; SUGAR-DEPENDENT 6 (SDP6); FUNCTIONS IN: glycerol-3-phosphate dehydrogenase activity; INVOLVED IN: glycerophosphate shuttle, glycerol metabolic process, glycerol catabolic process; LOCATED IN: mitochondrion, mitochondrial inner membrane; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: FAD dependent oxidoreductase (InterPro:IPR006076), FAD-dependent glycerol-3-phosphate dehydrogenase (InterPro:IPR000447); Has 7040 Blast hits to 7029 proteins in 1867 species: Archae - 83; Bacteria - 4925; Metazoa - 247; Fungi - 177; Plants - 55; Viruses - 0; Other Eukaryotes - 1553 (source: NCBI BLink). & (reliability: 320.0) & (original description: no original description) 0.9251871406391473 41 evm.model.contig_2067.3 (at4g24840 : 98.2) FUNCTIONS IN: molecular_function unknown; INVOLVED IN: protein transport, Golgi organization; LOCATED IN: vacuole; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: COG complex component, COG2 (InterPro:IPR009316); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink). & (reliability: 196.4) & (original description: no original description) 0.9236784876108767 66 evm.model.contig_4448.12 no hits & (original description: no original description) 0.9232703319792299 57 evm.model.contig_2141.7 (at5g36160 : 213.0) Tyrosine transaminase family protein; FUNCTIONS IN: 1-aminocyclopropane-1-carboxylate synthase activity, pyridoxal phosphate binding, transferase activity, transferring nitrogenous groups, transaminase activity, catalytic activity; INVOLVED IN: tyrosine catabolic process to phosphoenolpyruvate, cellular amino acid and derivative metabolic process, biosynthetic process; LOCATED IN: cellular_component unknown; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: 1-aminocyclopropane-1-carboxylate synthase (InterPro:IPR001176), Aminotransferase, class I/classII (InterPro:IPR004839), Pyridoxal phosphate-dependent transferase, major domain (InterPro:IPR015424), Tyrosine transaminase (InterPro:IPR021178), Tyrosine/nicotianamine aminotransferase (InterPro:IPR005958), Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (InterPro:IPR015421); BEST Arabidopsis thaliana protein match is: Tyrosine transaminase family protein (TAIR:AT5G53970.1); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink). & (reliability: 414.0) & (original description: no original description) 0.9229526976066227 47 evm.model.contig_812.1 no hits & (original description: no original description) 0.9229134796331049 79 evm.model.contig_4447.6 (original description: no original description) 0.921892465052244 32 evm.model.contig_2179.3 no hits & (original description: no original description) 0.9217003065056444 27 evm.model.contig_3404.7 no hits & (original description: no original description) 0.9182410047140773 45 evm.model.contig_4506.3 (at3g02320 : 263.0) N2,N2-dimethylguanosine tRNA methyltransferase; FUNCTIONS IN: RNA binding, tRNA (guanine-N2-)-methyltransferase activity; INVOLVED IN: tRNA processing; LOCATED IN: cellular_component unknown; EXPRESSED IN: 15 plant structures; EXPRESSED DURING: 6 growth stages; CONTAINS InterPro DOMAIN/s: N2,N2-dimethylguanosine tRNA methyltransferase (InterPro:IPR002905); BEST Arabidopsis thaliana protein match is: N2,N2-dimethylguanosine tRNA methyltransferase (TAIR:AT5G15810.1); Has 1019 Blast hits to 973 proteins in 363 species: Archae - 257; Bacteria - 68; Metazoa - 198; Fungi - 156; Plants - 105; Viruses - 0; Other Eukaryotes - 235 (source: NCBI BLink). & (reliability: 526.0) & (original description: no original description) 0.917757072766107 65 evm.model.contig_2198.2 no hits & (original description: no original description) 0.915822207881288 35 evm.model.contig_532.7 no hits & (original description: no original description) 0.9156719444264961 40 evm.model.contig_2116.8 (at1g64790 : 446.0) ILITYHIA (ILA) is a HEAT repeat protein involved in plant immunity. The gene is also involved in systemic acquired resistance induced by P. syringae expressing avrRps4. Loss-of-function mutants of ILA caused pleiotropic defects in the mutant plants. The mutant plants are smaller in size and the leaves are serrated and yellow to light green in color.; ILITYHIA (ILA); FUNCTIONS IN: binding; INVOLVED IN: systemic acquired resistance, defense response to bacterium; LOCATED IN: cytosol, nucleus; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: HEAT (InterPro:IPR000357), Armadillo-like helical (InterPro:IPR011989), HEAT, type 2 (InterPro:IPR021133), Armadillo-type fold (InterPro:IPR016024). & (reliability: 892.0) & (original description: no original description) 0.9156534092668724 37 evm.model.contig_2514.3 no hits & (original description: no original description) 0.9154732631386504 38 evm.model.contig_3558.8 no hits & (original description: no original description) 0.913730095473271 75 evm.model.contig_2099.5 (at3g26570 : 107.0) low affinity phosphate transporter; phosphate transporter 2;1 (PHT2;1); FUNCTIONS IN: low affinity phosphate transmembrane transporter activity; INVOLVED IN: phosphate transport; LOCATED IN: chloroplast, chloroplast envelope; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Phosphate transporter (InterPro:IPR001204); Has 12859 Blast hits to 5765 proteins in 1814 species: Archae - 502; Bacteria - 8606; Metazoa - 781; Fungi - 657; Plants - 230; Viruses - 6; Other Eukaryotes - 2077 (source: NCBI BLink). & (reliability: 214.0) & (original description: no original description) 0.913351345110086 55 evm.model.contig_3404.14 no hits & (original description: no original description) 0.913237820183258 62 evm.model.contig_2149.18 (at4g38130 : 505.0) Encodes a histone deacetylase that enhances AtERF7-mediated transcriptional repression. Binds SIM3 and ERF7. Expressed in the nucleus in most tissues examined and throughout the life of the plant. Involved in jasmonic acid and ethylene dependent pathogen resistance. The sequence in GenBank has 17 AG dinucleotide repeats missing, which is also missing in Ler shotgun sequence from Cereon. Although it is annotated to be in Columbia, the GB sequence is probably not of Columbia origin. Plays a role in embryogenesis as mutants grown at higher temperatures display abnormalities in the organization of the root and shoot. Plant lines expressing an RNAi construct targeted against HDA19 shows some resistance to agrobacterium-mediated root transformation.; histone deacetylase 1 (HD1); CONTAINS InterPro DOMAIN/s: Histone deacetylase (InterPro:IPR003084), Histone deacetylase superfamily (InterPro:IPR000286); BEST Arabidopsis thaliana protein match is: histone deacetylase 6 (TAIR:AT5G63110.1); Has 8759 Blast hits to 8549 proteins in 1452 species: Archae - 219; Bacteria - 3192; Metazoa - 1525; Fungi - 536; Plants - 478; Viruses - 0; Other Eukaryotes - 2809 (source: NCBI BLink). & (p56521|hdac_maize : 483.0) Probable histone deacetylase (RPD3 homolog) - Zea mays (Maize) & (reliability: 1010.0) & (original description: no original description) 0.9125134900295551 45 evm.model.contig_3442.9 (at5g08530 : 591.0) 51 kDa subunit of complex I (CI51); FUNCTIONS IN: 4 iron, 4 sulfur cluster binding, NAD or NADH binding, FMN binding, NADH dehydrogenase (ubiquinone) activity, oxidoreductase activity, acting on NADH or NADPH; INVOLVED IN: oxidation reduction, mitochondrial electron transport, NADH to ubiquinone; LOCATED IN: mitochondrion, mitochondrial respiratory chain complex I, respiratory chain complex I; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: NADH:ubiquinone oxidoreductase, 51kDa subunit, conserved site (InterPro:IPR001949), NADH:ubiquinone oxidoreductase, 51kDa subunit (InterPro:IPR011538), NADH ubiquinone oxidoreductase, F subunit (InterPro:IPR011537), Soluble ligand binding domain (InterPro:IPR019554), NADH ubiquinone oxidoreductase, F subunit, iron sulphur binding (InterPro:IPR019575); Has 8894 Blast hits to 8884 proteins in 1703 species: Archae - 49; Bacteria - 4484; Metazoa - 213; Fungi - 125; Plants - 97; Viruses - 0; Other Eukaryotes - 3926 (source: NCBI BLink). & (reliability: 1182.0) & (original description: no original description) 0.9120935501239412 46 evm.model.contig_2104.19 (at5g63920 : 413.0) Encodes topoisomerase 3alpha. Suppresses somatic crossovers. Essential for resolution of meiotic recombination intermediates.; topoisomerase 3alpha (TOP3A); FUNCTIONS IN: DNA topoisomerase activity, DNA topoisomerase type I activity, DNA binding, zinc ion binding, nucleic acid binding; INVOLVED IN: in 7 processes; LOCATED IN: chromosome; EXPRESSED IN: 17 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: DNA topoisomerase, type IA, zn finger (InterPro:IPR013498), DNA topoisomerase, type IA, core (InterPro:IPR000380), DNA topoisomerase, type IA, domain 2 (InterPro:IPR003601), DNA topoisomerase, type IA, DNA-binding (InterPro:IPR003602), DNA topoisomerase, type IA, central (InterPro:IPR013497), Zinc finger, GRF-type (InterPro:IPR010666), DNA topoisomerase, type IA, central region, subdomain 3 (InterPro:IPR013826), Toprim domain, subgroup (InterPro:IPR006154), DNA topoisomerase, type IA, central region, subdomain 1 (InterPro:IPR013824), Toprim domain (InterPro:IPR006171), Zinc finger, CCHC-type (InterPro:IPR001878); BEST Arabidopsis thaliana protein match is: DNA topoisomerase, type IA, core (TAIR:AT2G32000.1); Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0; Bacteria - 0; Metazoa - 736; Fungi - 347; Plants - 385; Viruses - 0; Other Eukaryotes - 339 (source: NCBI BLink). & (reliability: 826.0) & (original description: no original description) 0.9113306782282575 47 evm.model.contig_2192.4 no hits & (original description: no original description) 0.910737486736759 48 evm.model.contig_2291.5 (at1g76050 : 165.0) Pseudouridine synthase family protein; FUNCTIONS IN: pseudouridine synthase activity; INVOLVED IN: pseudouridine synthesis, RNA modification; LOCATED IN: chloroplast; EXPRESSED IN: shoot, leaf lamina base, stem, embryo, leaf whorl; EXPRESSED DURING: D bilateral stage; CONTAINS InterPro DOMAIN/s: Pseudouridine synthase, RluC/RluD (InterPro:IPR006225), Pseudouridine synthase, catalytic domain (InterPro:IPR020103), Pseudouridine synthase, RsuA and RluB/C/D/E/F (InterPro:IPR006145), Pseudouridine synthase, RluC/RluD, conserved site (InterPro:IPR006224), RNA-binding S4 (InterPro:IPR002942); BEST Arabidopsis thaliana protein match is: Pseudouridine synthase family protein (TAIR:AT3G19440.1); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink). & (reliability: 330.0) & (original description: no original description) 0.9100391093838536 50 evm.model.contig_512.4 (original description: no original description) 0.9092399861728783 66 evm.model.contig_2121.10 no hits & (original description: no original description) 0.9089724234973572 52 evm.model.contig_776.2 no hits & (original description: no original description) 0.9089335148215775 57 evm.model.contig_441.29 no hits & (original description: no original description) 0.9084367474351766 54 evm.model.contig_4530.2 no hits & (original description: no original description) 0.9080667940926432 55 evm.model.contig_2288.2 (at5g24850 : 377.0) Binds flavin adenine dinucleotide and DNA. It does not have photolyase activity, and it is likely to act as photoreceptor. Closely related to Synechocystis cryptochrome.; cryptochrome 3 (CRY3); FUNCTIONS IN: FMN binding, DNA binding, DNA photolyase activity; INVOLVED IN: DNA repair; LOCATED IN: mitochondrion, chloroplast; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Rossmann-like alpha/beta/alpha sandwich fold (InterPro:IPR014729), DNA photolyase, N-terminal (InterPro:IPR006050), Cryptochrome, DASH (InterPro:IPR014133), DNA photolyase, FAD-binding/Cryptochrome, C-terminal (InterPro:IPR005101), Cryptochrome/DNA photolyase, class 1 (InterPro:IPR002081); BEST Arabidopsis thaliana protein match is: photolyase/blue-light receptor 2 (TAIR:AT2G47590.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink). & (q651u1|cryd_orysa : 374.0) Cryptochrome DASH, chloroplast/mitochondrial precursor - Oryza sativa (Rice) & (reliability: 754.0) & (original description: no original description) 0.9078018516873522 57 evm.model.contig_2064.9 no hits & (original description: no original description) 0.9076332762857232 58 evm.model.contig_2494.10 (at5g65290 : 105.0) LMBR1-like membrane protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: endomembrane system, integral to membrane; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: LMBR1-like membrane protein, conserved region (InterPro:IPR006876); Has 378 Blast hits to 361 proteins in 164 species: Archae - 0; Bacteria - 1; Metazoa - 119; Fungi - 103; Plants - 62; Viruses - 0; Other Eukaryotes - 93 (source: NCBI BLink). & (reliability: 210.0) & (original description: no original description) 0.9073772216450673 60 evm.model.contig_473.4 (at5g08470 : 255.0) an AAA-ATPase that is the probable Arabidopsis orthologue of one of the AAA-ATPases involved in peroxisome biogenesis in yeasts and mammals.; peroxisome 1 (PEX1); FUNCTIONS IN: nucleoside-triphosphatase activity, ATPase activity, binding, nucleotide binding, ATP binding; INVOLVED IN: protein import into peroxisome matrix, fatty acid beta-oxidation, response to stress; LOCATED IN: peroxisome; EXPRESSED IN: 14 plant structures; EXPRESSED DURING: 6 growth stages; CONTAINS InterPro DOMAIN/s: ATPase, AAA+ type, core (InterPro:IPR003593), ATPase, AAA-type, core (InterPro:IPR003959), Aspartate decarboxylase-like fold (InterPro:IPR009010), ATPase, AAA-type, conserved site (InterPro:IPR003960), Peroxisome biogenesis factor 1, N-terminal (InterPro:IPR015342); BEST Arabidopsis thaliana protein match is: ATPase, AAA-type, CDC48 protein (TAIR:AT3G53230.1); Has 45022 Blast hits to 26157 proteins in 3042 species: Archae - 1897; Bacteria - 15808; Metazoa - 7500; Fungi - 5597; Plants - 4311; Viruses - 29; Other Eukaryotes - 9880 (source: NCBI BLink). & (p54774|cdc48_soybn : 198.0) Cell division cycle protein 48 homolog (Valosin-containing protein homolog) (VCP) - Glycine max (Soybean) & (reliability: 510.0) & (original description: no original description) 0.9066130719520838 60 evm.model.contig_3707.3 no hits & (original description: no original description) 0.9058098901625771 62 evm.model.contig_818.2 (at3g04650 : 217.0) FAD/NAD(P)-binding oxidoreductase family protein; LOCATED IN: chloroplast; EXPRESSED IN: 19 plant structures; EXPRESSED DURING: 12 growth stages; BEST Arabidopsis thaliana protein match is: FAD/NAD(P)-binding oxidoreductase family protein (TAIR:AT1G56000.1); Has 902 Blast hits to 899 proteins in 231 species: Archae - 14; Bacteria - 382; Metazoa - 7; Fungi - 2; Plants - 133; Viruses - 0; Other Eukaryotes - 364 (source: NCBI BLink). & (reliability: 434.0) & (original description: no original description) 0.9056376354167796 89 evm.model.contig_713.2 no hits & (original description: no original description) 0.9054509360561335 69 evm.model.contig_491.3 no hits & (original description: no original description) 0.9046797836011115 66 evm.model.contig_3670.1 no hits & (original description: no original description) 0.9000913172914039 70 evm.model.contig_2494.22 no hits & (original description: no original description) 0.8976664634801788 72 evm.model.contig_2082.4 (at1g18340 : 110.0) basal transcription factor complex subunit-related; FUNCTIONS IN: general RNA polymerase II transcription factor activity; INVOLVED IN: DNA repair, regulation of transcription, DNA-dependent; LOCATED IN: core TFIIH complex; EXPRESSED IN: 17 plant structures; EXPRESSED DURING: 9 growth stages; CONTAINS InterPro DOMAIN/s: Transcription factor Tfb4 (InterPro:IPR004600); Has 359 Blast hits to 354 proteins in 179 species: Archae - 0; Bacteria - 0; Metazoa - 118; Fungi - 143; Plants - 47; Viruses - 0; Other Eukaryotes - 51 (source: NCBI BLink). & (reliability: 220.0) & (original description: no original description) 0.897104530517305 75 evm.model.contig_4450.13 (at4g11420 : 376.0) Encodes a subunit of eukaryotic initiation factor 3 (eIF3), a multisubunit complex that is required for binding of mRNA to 40 S ribosomal subunits, stabilization of ternary complex binding to 40 S subunits, and dissociation of 40 and 60 S subunits.; eukaryotic translation initiation factor 3A (EIF3A); FUNCTIONS IN: translation initiation factor activity; INVOLVED IN: translational initiation; LOCATED IN: eukaryotic translation initiation factor 3 complex, plasma membrane; EXPRESSED IN: 26 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Proteasome component (PCI) domain (InterPro:IPR000717); BEST Arabidopsis thaliana protein match is: unknown protein (TAIR:AT4G23330.1); Has 151795 Blast hits to 76455 proteins in 3156 species: Archae - 1231; Bacteria - 22686; Metazoa - 70860; Fungi - 11049; Plants - 6472; Viruses - 438; Other Eukaryotes - 39059 (source: NCBI BLink). & (q40554|if3a_tobac : 367.0) Eukaryotic translation initiation factor 3 subunit 10 (eIF-3 theta) (Eukaryotic translation initiation factor 3 large subunit) (eIF3a) (PNLA-35) - Nicotiana tabacum (Common tobacco) & (reliability: 752.0) & (original description: no original description) 0.896963565011075 76 evm.model.contig_2019.10 (at4g18360 : 176.0) Aldolase-type TIM barrel family protein; FUNCTIONS IN: glycolate oxidase activity, oxidoreductase activity, FMN binding, catalytic activity; INVOLVED IN: oxidation reduction, metabolic process; LOCATED IN: peroxisome; EXPRESSED IN: 12 plant structures; EXPRESSED DURING: 4 anthesis, F mature embryo stage, petal differentiation and expansion stage, E expanded cotyledon stage, D bilateral stage; CONTAINS InterPro DOMAIN/s: Aldolase-type TIM barrel (InterPro:IPR013785), FMN-dependent alpha-hydroxy acid dehydrogenase, active site (InterPro:IPR008259), FMN-dependent dehydrogenase (InterPro:IPR000262), Alpha-hydroxy acid dehydrogenase, FMN-dependent (InterPro:IPR012133); BEST Arabidopsis thaliana protein match is: Aldolase-type TIM barrel family protein (TAIR:AT3G14420.2); Has 9948 Blast hits to 9918 proteins in 1541 species: Archae - 28; Bacteria - 4496; Metazoa - 367; Fungi - 686; Plants - 255; Viruses - 0; Other Eukaryotes - 4116 (source: NCBI BLink). & (p05414|gox_spiol : 169.0) Peroxisomal (S)-2-hydroxy-acid oxidase (EC 1.1.3.15) (Glycolate oxidase) (GOX) (Short chain alpha-hydroxy acid oxidase) - Spinacia oleracea (Spinach) & (reliability: 352.0) & (original description: no original description) 0.8968830208048835 81 evm.model.contig_2039.3 no hits & (original description: no original description) 0.8946216388871924 78 evm.model.contig_4491.7 no hits & (original description: no original description) 0.8922021214165388 85 evm.model.contig_2130.13 (at5g66760 : 881.0) One of two genes in Arabidopsis that encode a flavoprotein subunit of the mitochondrial succinate dehydrogenase complex.; succinate dehydrogenase 1-1 (SDH1-1); FUNCTIONS IN: cobalt ion binding, succinate dehydrogenase activity, ATP binding; INVOLVED IN: mitochondrial electron transport, succinate to ubiquinone; LOCATED IN: mitochondrial respiratory chain complex II, mitochondrion, cell wall; EXPRESSED IN: 26 plant structures; EXPRESSED DURING: 16 growth stages; CONTAINS InterPro DOMAIN/s: Succinate dehydrogenase, flavoprotein subunit (InterPro:IPR011281), Fumarate reductase/succinate dehydrogenase, FAD-binding site (InterPro:IPR003952), Fumarate reductase/succinate dehydrogenase flavoprotein-like, C-terminal (InterPro:IPR015939), Fumarate reductase/succinate dehydrogenase flavoprotein, N-terminal (InterPro:IPR003953), Succinate dehydrogenase/fumarate reductase, flavoprotein subunit (InterPro:IPR014006), Fumarate reductase/succinate dehydrogenase flavoprotein, C-terminal (InterPro:IPR004112); BEST Arabidopsis thaliana protein match is: succinate dehydrogenase 1-2 (TAIR:AT2G18450.1); Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0; Bacteria - 0; Metazoa - 736; Fungi - 347; Plants - 385; Viruses - 0; Other Eukaryotes - 339 (source: NCBI BLink). & (q6zdy8|dhsa_orysa : 876.0) Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial precursor (EC 1.3.5.1) (FP) (Flavoprotein subunit of complex II) - Oryza sativa (Rice) & (reliability: 1762.0) & (original description: no original description) 0.8919223393104748 98 evm.model.contig_455.2 (at3g17465 : 157.0) encodes a putative L3 ribosomal protein targeted to the plastid.; ribosomal protein L3 plastid (RPL3P); CONTAINS InterPro DOMAIN/s: Ribosomal protein L3 (InterPro:IPR000597), Ribosomal protein L3, bacterial/organelle-type (InterPro:IPR019927), Ribosomal protein L3, conserved site (InterPro:IPR019926), Translation elongation/initiation factor/Ribosomal, beta-barrel (InterPro:IPR009000); BEST Arabidopsis thaliana protein match is: Ribosomal protein L3 family protein (TAIR:AT2G43030.1); Has 8719 Blast hits to 8719 proteins in 2855 species: Archae - 267; Bacteria - 5444; Metazoa - 136; Fungi - 140; Plants - 91; Viruses - 0; Other Eukaryotes - 2641 (source: NCBI BLink). & (o80360|rk3_tobac : 117.0) 50S ribosomal protein L3, chloroplast precursor (Fragment) - Nicotiana tabacum (Common tobacco) & (reliability: 314.0) & (original description: no original description) 0.891871912999118 88 evm.model.contig_2190.12 no hits & (original description: no original description) 0.891566332303904 89 evm.model.contig_2034.9 (at5g42970 : 231.0) encodes subunit 4 of COP9 signalosome complex. sequence is similar to a subunit of the 19S regulatory particle of the 26S proteasome. recessive mutation causes derepression of photomorphogenesis.; CONSTITUTIVE PHOTOMORPHOGENIC 8 (COP8); FUNCTIONS IN: protein binding; INVOLVED IN: cullin deneddylation, negative regulation of photomorphogenesis, G2 phase of mitotic cell cycle, photomorphogenesis; LOCATED IN: signalosome; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Winged helix-turn-helix transcription repressor DNA-binding (InterPro:IPR011991), Proteasome component (PCI) domain (InterPro:IPR000717); BEST Arabidopsis thaliana protein match is: regulatory particle non-ATPase subunit 5B (TAIR:AT5G64760.2); Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0; Bacteria - 0; Metazoa - 736; Fungi - 347; Plants - 385; Viruses - 0; Other Eukaryotes - 339 (source: NCBI BLink). & (reliability: 462.0) & (original description: no original description) 0.8910083255978771 95 evm.model.contig_2049.7 no hits & (original description: no original description) 0.8907424912286953 94 evm.model.contig_664.4 no hits & (original description: no original description) 0.8905060323839613 96 evm.model.contig_508.3 no hits & (original description: no original description) 0.8904001265847542 97 evm.model.contig_4422.5 no hits & (original description: no original description) 0.8901283342326407 98 evm.model.contig_3432.6 (at3g47390 : 201.0) Encodes a protein that is believed to function as a pyrimidine reductase involved in riboflavin and FAD biosynthesis. phs1 was identified as a photosensitive mutant that shows reduced growth, chloroplast developmental abnormalities, reduced chlorophyll levels, increased oxidative stress, reduced NADPH/NADP+ ratios, reduced photosystem I electron transport, and reduced photosynthetic protein levels under high light conditions. Many of these abnormal phenotypes likely arise from the reduction in the levels of FAD in the phs1 mutant.; PHOTOSENSITIVE 1 (PHS1); CONTAINS InterPro DOMAIN/s: Conserved hypothetical protein CHP02464 (InterPro:IPR012816), CMP/dCMP deaminase, zinc-binding (InterPro:IPR002125), Cytidine deaminase-like (InterPro:IPR016193), Riboflavin-specific deaminase, C-terminal (InterPro:IPR011549), Bacterial bifunctional deaminase-reductase, C-terminal (InterPro:IPR002734), Riboflavin biosynthesis protein RibD (InterPro:IPR004794); BEST Arabidopsis thaliana protein match is: Cytidine/deoxycytidylate deaminase family protein (TAIR:AT4G20960.1). & (reliability: 402.0) & (original description: no original description) 0.8897236669379542 99