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.
This gene belongs to the CO (CONSTANS) gene family. This gene family is divided in three subgroups: groups III%2C to which COL9 belongs%2C is characterised by one B-box (supposed to regulate protein-protein interactions) and a second diverged zinc finger. COL9 downregulates expression of CO (CONSTANS) as well as FT and SOC1 which are known regulatory targets of CO.
Protein of unknown function (DUF1685)%3B FUNCTIONS IN: molecular_function unknown%3B INVOLVED IN: biological_process unknown%3B EXPRESSED IN: 11 plant structures%3B EXPRESSED DURING: 6 growth stages%3B CONTAINS InterPro DOMAIN/s: Protein of unknown function DUF1685 (InterPro:IPR012881)%3B BEST Arabidopsis thaliana protein match is: Protein of unknown function (DUF1685) (TAIR:AT2G15590.2)%3B Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12%3B Bacteria - 1396%3B Metazoa - 17338%3B Fungi - 3422%3B Plants - 5037%3B Viruses - 0%3B Other Eukaryotes - 2996 (source: NCBI BLink).
Encodes a novel nuclear 111 amino-acid phytochrome-regulated component of a negative feedback loop involving the circadian clock central oscillator components CCA1 and LHY. ELF4 is necessary for light-induced expression of both CCA1 and LHY%2C and conversely%2C CCA1 and LHY act negatively on light-induced ELF4 expression. ELF4 promotes clock accuracy and is required for sustained rhythms in the absence of daily light/dark cycles. It is involved in the phyB-mediated constant red light induced seedling de-etiolation process and may function to coregulate the expression of a subset of phyB-regulated genes.
Syntaxin-related protein required for vacuolar assembly. A member of t-SNARE superfamily%2C homologous to yest Vam3p. Localized in the vacuolar membranes. The protein has a heptad repeat structure (residues164%E2%80%93220) in which hydrophobic amino acid residues appear at seven amino acid intervals. Such regions have a high potential to form an amphiphilic a-helix%2C intriguing for the intermolecular interactions by forming coiled-coil structure. AtVam3p has a highly hydrophobic segment at its C terminus thus implicating it to be a membrane protein while the rest of the sequence is hydrophilic.
small GTP-binding protein (Rab11)similar to YPT3/RAB11 proteins in yeast and mammals%2C respectively. YPT3/RAB11 is involved in intracellular protein trafficking.
member of Heat Stress Transcription Factor (Hsf) family. Involved in response to misfolded protein accumulation in the cytosol. Regulated by alternative splicing and non-sense-mediated decay.
Encodes a pseudo-response regulator whose mutation affects various circadian-associated biological events such as flowering time in the long-day photoperiod conditions%2C red light sensitivity of seedlings during early photomorphogenesis%2C and the period of free-running rhythms of certain clock-controlled genes including CCA1 and APRR1/TOC1 in constant white light. Acts as transcriptional repressor of CCA1 and LHY.
Encodes a member of the Arabidopsis LIM proteins: a family of actin bundlers with distinct expression patterns. WLIM1%2C WLIM2a%2C and WLIM2b are widely expressed%2C whereas PLIM2a%2C PLIM2b%2C and PLIM2c are predominantly expressed in pollen. Regulates actin cytoskeleton organization.
Ribosomal protein S3 family protein%3B FUNCTIONS IN: structural constituent of ribosome%3B INVOLVED IN: response to salt stress%2C translation%3B LOCATED IN: cytosolic small ribosomal subunit%2C cytosolic ribosome%2C nucleolus%2C membrane%3B EXPRESSED IN: 23 plant structures%3B EXPRESSED DURING: 14 growth stages%3B CONTAINS InterPro DOMAIN/s: K Homology%2C prokaryotic type (InterPro:IPR009019)%2C K Homology%2C type 2 (InterPro:IPR004044)%2C K Homology (InterPro:IPR004087)%2C Ribosomal protein S3%2C C-terminal (InterPro:IPR001351)%2C Ribosomal protein S3%2C eukaryotic/archaeal (InterPro:IPR005703)%3B BEST Arabidopsis thaliana protein match is: Ribosomal protein S3 family protein (TAIR:AT2G31610.1)%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).
Encodes an isoamylase-like protein. Mutant studies show that the gene is strongly involved in starch breakdown. A GUS-protein fusion product was shown to localize to the surface of chloroplastic structures reminiscent of starch granules. In the mutants%2C the chloroplastic %26#945%3B-amylase AMY3 is upregulated.
FUNCTIONS IN: molecular_function unknown%3B INVOLVED IN: biological_process unknown%3B LOCATED IN: plasma membrane%3B EXPRESSED IN: 22 plant structures%3B EXPRESSED DURING: 13 growth stages%3B CONTAINS InterPro DOMAIN/s: Protein of unknown function DUF21 (InterPro:IPR002550)%2C Cystathionine beta-synthase%2C core (InterPro:IPR000644)%3B BEST Arabidopsis thaliana protein match is: CBS domain-containing protein with a domain of unknown function (DUF21) (TAIR:AT2G14520.1)%3B Has 13295 Blast hits to 13266 proteins in 2597 species: Archae - 106%3B Bacteria - 10306%3B Metazoa - 262%3B Fungi - 156%3B Plants - 233%3B Viruses - 0%3B Other Eukaryotes - 2232 (source: NCBI BLink).
CONTAINS InterPro DOMAIN/s: Protein of unknown function DUF3741 (InterPro:IPR022212)%3B BEST Arabidopsis thaliana protein match is: Phosphatidylinositol N-acetyglucosaminlytransferase subunit P-related (TAIR:AT2G45900.1)%3B Has 703 Blast hits to 632 proteins in 148 species: Archae - 5%3B Bacteria - 69%3B Metazoa - 168%3B Fungi - 50%3B Plants - 149%3B Viruses - 4%3B Other Eukaryotes - 258 (source: NCBI BLink).
Encodes a member of the BASIC PENTACYSTEINE (BPC) proteins. BPC proteins are plant-specific transcription factors present throughout land plants. BPC transcription factor family is integral for a wide range of processes that support normal growth and development.
Protein kinase family protein%3B FUNCTIONS IN: protein serine/threonine kinase activity%2C protein kinase activity%2C kinase activity%2C ATP binding%3B INVOLVED IN: protein amino acid phosphorylation%3B EXPRESSED IN: 22 plant structures%3B EXPRESSED DURING: 13 growth stages%3B CONTAINS InterPro DOMAIN/s: Protein kinase%2C ATP binding site (InterPro:IPR017441)%2C Protein kinase%2C catalytic domain (InterPro:IPR000719)%2C Serine/threonine-protein kinase domain (InterPro:IPR002290)%2C Serine/threonine-protein kinase-like domain (InterPro:IPR017442)%2C Protein kinase-like domain (InterPro:IPR011009)%2C Serine/threonine-protein kinase%2C active site (InterPro:IPR008271)%3B BEST Arabidopsis thaliana protein match is: Protein kinase family protein (TAIR:AT3G13670.1)%3B Has 17667 Blast hits to 17599 proteins in 1508 species: Archae - 20%3B Bacteria - 6581%3B Metazoa - 4779%3B Fungi - 1455%3B Plants - 2098%3B Viruses - 217%3B Other Eukaryotes - 2517 (source: NCBI BLink).
CONTAINS InterPro DOMAIN/s: Proteasome-interacting thioredoxin-like domain%2C C-terminal (InterPro:IPR010400)%3B BEST Arabidopsis thaliana protein match is: Protein of unknown function (DUF1000) (TAIR:AT3G04780.1)%3B Has 551 Blast hits to 551 proteins in 191 species: Archae - 0%3B Bacteria - 0%3B Metazoa - 233%3B Fungi - 139%3B Plants - 82%3B Viruses - 0%3B Other Eukaryotes - 97 (source: NCBI BLink).
Ribosomal protein S30 family protein%3B FUNCTIONS IN: structural constituent of ribosome%3B INVOLVED IN: translation%3B LOCATED IN: cytosolic small ribosomal subunit%2C ribosome%3B EXPRESSED IN: 23 plant structures%3B EXPRESSED DURING: 15 growth stages%3B CONTAINS InterPro DOMAIN/s: Ribosomal protein S30 (InterPro:IPR006846)%3B BEST Arabidopsis thaliana protein match is: Ribosomal protein S30 family protein (TAIR:AT4G29390.1)%3B Has 682 Blast hits to 682 proteins in 246 species: Archae - 2%3B Bacteria - 0%3B Metazoa - 304%3B Fungi - 135%3B Plants - 106%3B Viruses - 1%3B Other Eukaryotes - 134 (source: NCBI BLink).
This gene is predicted to encode a protein involved in the exon junction complex. Though there is a predicted RNA binding motif%2C in the Drosophila ortholog (33%25 identity)%2C this motif mediates interactions with Mago and is not available for RNA binding. The Arabidopsis Y14 protein appears to be predominantly nucleolar%2C but there is also some evidence for its presence in the cytoplasm.
Encodes a transcription factor%2C TFIIB1%2C that plays important roles in pollen tube growth%2C guidance%2C and reception as well as endosperm development and is partially functionally different from AtTFIIB2 and AtTFIIB3/AtpBRP2.
Encodes DBP1%2C a member of the DBP factors (DNA-binding protein phosphatases) featuring sequence-specific DNA-binding and protein phosphatase activity. DBP1 is involved in plant-potyvirus interactions. Loss-of-function of DBP1 renders resistance to potyviruses.
Encodes a heme oxygenase-like protein lacking the conserved histidine residue at the active site that is usually involved in heme-iron coordination. It is unable to bind and degrade heme. Mutant analyses suggest a role in photomorphogenesis. The protein can bind the heme precursor%2C proto IX%2C which could be biologically significant and point to a role in the regulation of the two tetrapyrrole biosynthetic pathways.
Encodes ribosomal protein L10aP. Identified in a screen for enhancers of as1. as1/pgy double mutants show defects in leaf vascular patterning and adaxial cell fate. Double mutant analysis indicates pgy genes function in the same pathway as REV%2C KAN1 and KAN2.
Encodes an RNA helicase that may be a component of the Exon Junction Complex. Subcellular localization is modulated by stress. Under normal conditions it is localized to the nuceloplasm but under hyopoxic conditions it localizes to the nucleolus and splicing speckles.
Encodes a chloroplastic lipocalin AtCHL. Located in thylakoid lumen. Involved in the protection of thylakoidal membrane lipids against reactive oxygen species%2C especially singlet oxygen%2C produced upon excess light.
Encodes Acyl-CoA:diacylglycerol acyltransferase (DGAT) catalyzes the final step of the triacylglycerol synthesis pathway. An insertion mutation in the TAG1 gene results in altered lipid phenotype. Role in senescence and seed development. Its preferred substrate is linolenoyl-CoA (C18:3-CoA).
Ribosomal protein L7/L12%2C oligomerisation%3BRibosomal protein L7/L12%2C C-terminal/adaptor protein ClpS-like%3B FUNCTIONS IN: structural constituent of ribosome%3B INVOLVED IN: translation%3B LOCATED IN: mitochondrion%2C large ribosomal subunit%3B EXPRESSED IN: 22 plant structures%3B EXPRESSED DURING: 13 growth stages%3B CONTAINS InterPro DOMAIN/s: Ribosomal protein L12%2C chloroplast (InterPro:IPR015608)%2C Ribosomal protein L7/L12%2C C-terminal/adaptor protein ClpS-like (InterPro:IPR014719)%2C Ribosomal protein L7/L12%2C oligomerisation (InterPro:IPR008932)%2C Ribosomal protein L7/L12%2C C-terminal (InterPro:IPR013823)%3B BEST Arabidopsis thaliana protein match is: Ribosomal protein L12 family protein (TAIR:AT4G36420.1)%3B Has 8429 Blast hits to 8429 proteins in 2754 species: Archae - 0%3B Bacteria - 5654%3B Metazoa - 195%3B Fungi - 132%3B Plants - 253%3B Viruses - 0%3B Other Eukaryotes - 2195 (source: NCBI BLink).
Encodes AKT1%2C a member of the Shaker family inward rectifying potassium channel predominantly expressed in predominantly in root hairs and root endodermis. This family includes five groups based on phylogenetic analysis (FEBS Letters (2007) 581: 2357): I (inward rectifying channel): AKT1 (AT2G26650)%2C AKT5 (AT4G32500) and SPIK (also known as AKT6%2C AT2G25600)%3B II (inward rectifying channel): KAT1 (AT5G46240) and KAT2 (AT4G18290)%3B III (weakly inward rectifying channel): AKT2 (AT4G22200)%3B IV (regulatory subunit involved in inwardly rectifying conductance formation): KAT3 (also known as AtKC1%2C AT4G32650)%3B V (outward rectifying channel): SKOR (AT3G02850) and GORK (AT5G37500).
Ribosomal protein L39 family protein%3B FUNCTIONS IN: structural constituent of ribosome%3B INVOLVED IN: translation%3B LOCATED IN: ribosome%2C cytosolic large ribosomal subunit%3B EXPRESSED IN: 23 plant structures%3B EXPRESSED DURING: 13 growth stages%3B CONTAINS InterPro DOMAIN/s: Ribosomal protein L39e%2C conserved site (InterPro:IPR020083)%2C Ribosomal protein L39e (InterPro:IPR000077)%3B BEST Arabidopsis thaliana protein match is: Ribosomal protein L39 family protein (TAIR:AT4G31985.1)%3B Has 908 Blast hits to 908 proteins in 288 species: Archae - 195%3B Bacteria - 0%3B Metazoa - 389%3B Fungi - 107%3B Plants - 121%3B Viruses - 0%3B Other Eukaryotes - 96 (source: NCBI BLink).
Nucleotide/sugar transporter family protein%3B CONTAINS InterPro DOMAIN/s: Protein of unknown function DUF6%2C transmembrane (InterPro:IPR000620)%2C Protein of unknown function DUF250 (InterPro:IPR004853)%3B BEST Arabidopsis thaliana protein match is: Nucleotide-sugar transporter family protein (TAIR:AT5G25400.1)%3B Has 2283 Blast hits to 2278 proteins in 296 species: Archae - 6%3B Bacteria - 116%3B Metazoa - 574%3B Fungi - 390%3B Plants - 969%3B Viruses - 0%3B Other Eukaryotes - 228 (source: NCBI BLink).
Encodes a protein disulfide isomerase-like (PDIL) protein%2C a member of a multigene family within the thioredoxin (TRX) superfamily. Unlike several other PDI family members%2C transcript levels for this gene are not up-regulated in response to three different chemical inducers of ER stress (dithiothreitol%2C beta-mercaptoethanol%2C and tunicamycin).
Arabidopsis protein of unknown function (DUF241)%3B CONTAINS InterPro DOMAIN/s: Protein of unknown function DUF241%2C plant (InterPro:IPR004320)%3B BEST Arabidopsis thaliana protein match is: Arabidopsis protein of unknown function (DUF241) (TAIR:AT4G35720.1)%3B Has 444 Blast hits to 436 proteins in 12 species: Archae - 0%3B Bacteria - 0%3B Metazoa - 0%3B Fungi - 0%3B Plants - 444%3B Viruses - 0%3B Other Eukaryotes - 0 (source: NCBI BLink).
Encodes a homologue of the ATR-interacting protein ATRIP. Mutant (named sensitive to UV2 or suv2) is UVB-hypersensitive and defective in DNA damage response.
Ribosomal protein L11 family protein%3B FUNCTIONS IN: structural constituent of ribosome%2C zinc ion binding%3B INVOLVED IN: response to cold%2C ribosome biogenesis%3B LOCATED IN: in 7 components%3B EXPRESSED IN: 25 plant structures%3B EXPRESSED DURING: 15 growth stages%3B CONTAINS InterPro DOMAIN/s: Ribosomal protein L11%2C C-terminal domain (InterPro:IPR020783)%2C Ribosomal protein L11%2C N-terminal domain (InterPro:IPR020784)%2C Ribosomal protein L11%2C conserved site (InterPro:IPR020785)%2C Ribosomal protein L11 (InterPro:IPR000911)%3B BEST Arabidopsis thaliana protein match is: Ribosomal protein L11 family protein (TAIR:AT3G53430.1)%3B Has 1580 Blast hits to 1580 proteins in 592 species: Archae - 303%3B Bacteria - 410%3B Metazoa - 359%3B Fungi - 167%3B Plants - 131%3B Viruses - 0%3B Other Eukaryotes - 210 (source: NCBI BLink).
Positive regulator of photomorphogenesis that acts downstream of COP1 but can promote lateral root development independently of COP1 and also function as a daylength-sensitive regulator of shoot branching.
encodes a serine-threonine protein kinase whose expression increases in response to abscisic acid%2C cold%2C drought%2C high salt%2C and wounding conditions. The gene is expressed in developing seeds and seedlings. Lines carrying a T-DNA insertions have reduced germination efficiency and expression of cold%2C high-salt%2C and abscisic acid marker genes are altered%2C but not drought-response markers.
Encodes ribosomal protein L5 that binds to 5S ribosomal RNA and in involved in its export from the nucleus to the cytoplasm. Identified in a screen for enhancers of as1. as1/pgy double mutants show defects in leaf vascular patterning and adaxial cell fate. Double mutant analysis indicates pgy genes function in the same pathway as REV%2C KAN1 and KAN2.
Ribosomal protein L10 family protein%3B FUNCTIONS IN: structural constituent of ribosome%3B INVOLVED IN: translational elongation%2C response to salt stress%2C translation%3B LOCATED IN: cytosolic ribosome%2C ribosome%2C membrane%3B EXPRESSED IN: 23 plant structures%3B EXPRESSED DURING: 13 growth stages%3B CONTAINS InterPro DOMAIN/s: Ribosomal protein 60S (InterPro:IPR001813)%2C Ribosomal protein L10 (InterPro:IPR001790)%3B BEST Arabidopsis thaliana protein match is: Ribosomal protein L10 family protein (TAIR:AT3G09200.1)%3B Has 1983 Blast hits to 1980 proteins in 500 species: Archae - 322%3B Bacteria - 1%3B Metazoa - 680%3B Fungi - 420%3B Plants - 226%3B Viruses - 0%3B Other Eukaryotes - 334 (source: NCBI BLink).
TATA-binding related factor (TRF) of subunit 20 of Mediator complex%3B FUNCTIONS IN: RNA polymerase II transcription mediator activity%3B INVOLVED IN: regulation of transcription from RNA polymerase II promoter%3B LOCATED IN: mediator complex%3B CONTAINS InterPro DOMAIN/s: Mediator complex%2C subunit Med20 (InterPro:IPR013921)%3B BEST Arabidopsis thaliana protein match is: TATA-binding related factor (TRF) of subunit 20 of Mediator complex (TAIR:AT4G09070.1)%3B Has 80 Blast hits to 80 proteins in 37 species: Archae - 0%3B Bacteria - 0%3B Metazoa - 28%3B Fungi - 0%3B Plants - 45%3B Viruses - 0%3B Other Eukaryotes - 7 (source: NCBI BLink).
Encodes a protein of unknown function that is involved in cortical microtubule organization. Mutants exhibit abnormal cell growth and patterns of division. TON1A can functionally complement TON1B and their roles appear to be redundant in plants. Encodes a novel protein that is similar to human FOP and OFD1 centrosomal proteins. Localizes to the preprophase band%2C cytoplasm and cell cortex where it is probably associated with the cortical cytoskeleton. TON1A associates with plant centrins CEN1 and CEN2.
Predicted to encode a PR (pathogenesis-related) protein. Belongs to the plant defensin (PDF) family with the following members: At1g75830/PDF1.1%2C At5g44420/PDF1.2a%2C At2g26020/PDF1.2b%2C At5g44430/PDF1.2c%2C At2g26010/PDF1.3%2C At1g19610/PDF1.4%2C At1g55010/PDF1.5%2C At2g02120/PDF2.1%2C At2g02100/PDF2.2%2C At2g02130/PDF2.3%2C At1g61070/PDF2.4%2C At5g63660/PDF2.5%2C At2g02140/PDF2.6%2C At5g38330/PDF3.1 and At4g30070/PDF3.2.
Ribosomal protein L35Ae family protein%3B FUNCTIONS IN: structural constituent of ribosome%3B INVOLVED IN: translation%2C ribosome biogenesis%3B LOCATED IN: ribosome%2C cytosolic large ribosomal subunit%3B EXPRESSED IN: 22 plant structures%3B EXPRESSED DURING: 13 growth stages%3B CONTAINS InterPro DOMAIN/s: Ribosomal protein L35Ae (InterPro:IPR001780)%2C Ribosomal protein L35Ae%2C conserved site (InterPro:IPR018266)%3B BEST Arabidopsis thaliana protein match is: Ribosomal protein L35Ae family protein (TAIR:AT1G74270.1)%3B Has 767 Blast hits to 767 proteins in 257 species: Archae - 25%3B Bacteria - 0%3B Metazoa - 324%3B Fungi - 146%3B Plants - 149%3B Viruses - 0%3B Other Eukaryotes - 123 (source: NCBI BLink).
PIN domain-like family protein%3B CONTAINS InterPro DOMAIN/s: Protein of unknown function DUF652 (InterPro:IPR006984)%2C Nucleotide binding protein%2C PINc (InterPro:IPR006596)%3B BEST Arabidopsis thaliana protein match is: PIN domain-like family protein (TAIR:AT1G26530.1)%3B Has 697 Blast hits to 697 proteins in 237 species: Archae - 32%3B Bacteria - 0%3B Metazoa - 241%3B Fungi - 212%3B Plants - 105%3B Viruses - 0%3B Other Eukaryotes - 107 (source: NCBI BLink).
Ribosomal protein S11 family protein%3B CONTAINS InterPro DOMAIN/s: Ribosomal protein S11 (InterPro:IPR001971)%2C Ribosomal S11%2C conserved site (InterPro:IPR018102)%3B BEST Arabidopsis thaliana protein match is: Ribosomal protein S11 family protein (TAIR:AT3G11510.1)%3B Has 8774 Blast hits to 8774 proteins in 2899 species: Archae - 250%3B Bacteria - 4863%3B Metazoa - 589%3B Fungi - 162%3B Plants - 729%3B Viruses - 0%3B Other Eukaryotes - 2181 (source: NCBI BLink).
Encodes a cyclin-dependent kinase inhibitor protein that functions as a negative regulator of cell division and promoter of endoreduplication. A member of seven KRP genes found in Arabidopsis thaliana. Differential expression patterns for distinct KRPs were revealed by in situ hybridization. Both SKP2b and RKP appear to be involved in the degradation of KRP1.
Encodes a cysteine-rich peptide%2C a secretory factor that is produced in the mesophyll cells and acts on the epidermis to increase stomatal formation. Its mature form is a 45-aa peptide with three intramolecular disulfide bonds. It is proposed that STOMAGEN increases stomatal number by competing with two negative regulators of stomatal density%2C EPF1 and EPF2%2C possibly through direct interaction with the receptor-like protein TMM. Its transcript levels change after inducing MUTE expression in a mute background.
Encodes glutathione transferase belonging to the tau class of GSTs. Naming convention according to Wagner et al. (2002). Induced by Salicylic acid. Independent of NPR1 for their induction by salicylic acid.
Ribosomal protein L16p/L10e family protein%3B FUNCTIONS IN: structural constituent of ribosome%3B INVOLVED IN: response to UV-B%2C developmental process%2C translation%3B LOCATED IN: ribosome%2C membrane%2C chloroplast envelope%3B EXPRESSED IN: 25 plant structures%3B EXPRESSED DURING: 15 growth stages%3B CONTAINS InterPro DOMAIN/s: Ribosomal protein L10e (InterPro:IPR001197)%2C Ribosomal protein L10e/L16 (InterPro:IPR016180)%2C Ribosomal protein L10e%2C conserved site (InterPro:IPR018255)%3B BEST Arabidopsis thaliana protein match is: Ribosomal protein L16p/L10e family protein (TAIR:AT1G14320.1)%3B Has 1680 Blast hits to 1678 proteins in 606 species: Archae - 325%3B Bacteria - 13%3B Metazoa - 563%3B Fungi - 162%3B Plants - 159%3B Viruses - 0%3B Other Eukaryotes - 458 (source: NCBI BLink).
Encodes FKF1%2C a flavin-binding kelch repeat F box protein%2C is clock-controlled%2C regulates transition to flowering. Forms a complex with GI on the CO promoter to regulate CO expression.
This gene is predicted to encode a protein that functions as a Golgi apparatus structural component known as a golgin in mammals and yeast. A fluorescently-tagged version of GC1 co-localizes with Golgi markers%2C and this localization appears to be replicated using the C-terminal (558-715 aa) portion of the protein.
Encodes pseudo-response regulator 3 (APRR3/PRR3). PRR3 transcript levels vary in a circadian pattern with peak expression at dusk under long and short day conditions. PRR3 affects the period of the circadian clock and seedlings with reduced levels of PRR3 have shorter periods%2C based on transcriptional assays of clock-regulated genes. PRR3 is expressed in the vasculature of cotyledons and leaves where it may help stabilize the TOC1 protein by preventing interactions between TOC1 and the F-box protein ZTL.
Encodes a member of a family of Ser/Thr kinases whose activities peak during cell division. Transcripts are abundant in tissues rich in dividing cells like roots and flowers but are low or absent in fully expanded leaves and stems. In interphase cells%2C the protein is predominantly nuclear. During mitosis%2C the protein associates with plant-specific cytoskeletal structures (preprophase band%2C phragmoplast%2C nascent cell plate) that are necessary for cytokinesis as well as with the microtubule spindle.
Encodes a RNA binding protein ELF9 (EARLY FLOWERING9). Loss of ELF9 function in the Wassilewskija ecotype causes early flowering in short days. ELF9 reduces SOC1 (SUPPRESSOR OF OVEREXPRESSION OF CO1) transcript levels%2C possibly via nonsense-mediated mRNA decay.
Encodes a protein disulfide isomerase-like (PDIL) protein%2C a member of a multigene family within the thioredoxin (TRX) superfamily. Unlike several other PDI family members%2C transcript levels for this gene are not up-regulated in response to three different chemical inducers of ER stress (dithiothreitol%2C beta-mercaptoethanol%2C and tunicamycin).
EARLY IN SHORT DAYS 4 Arabidopsis mutant shows extreme early flowering and alterations in shoot development. It encodes a SUMO protease%2C located predominantly at the periphery of the nucleus. Accelerates the transition from vegetative growth to flowering. Probably acts in the same pathway as NUA in affecting flowering time%2C vegetative and inflorescence development.
Encodes a plastid-localized arogenate dehydratase involved in phenylalanine biosynthesis. Not less than six genes encoding ADT were identi%26#64257%3Bed in the Arabidopsis genome: ADT1 [At1g11790]%3B ADT2 [At3g07630]%3B ADT3 [At2g27820]%3B ADT4 [At3g44720]%3B ADT5 [At5g22630]%3B and ADT6 [At1g08250].
Ribosomal protein L22p/L17e family protein%3B FUNCTIONS IN: structural constituent of ribosome%3B INVOLVED IN: translation%3B LOCATED IN: ribosome%2C cytosolic large ribosomal subunit%2C plasma membrane%2C chloroplast%2C vacuole%3B EXPRESSED IN: 23 plant structures%3B EXPRESSED DURING: 13 growth stages%3B CONTAINS InterPro DOMAIN/s: Ribosomal protein L22/L17 (InterPro:IPR001063)%2C Ribosomal protein L22/L17%2C eukaryotic/archaeal (InterPro:IPR005721)%2C Ribosomal protein L22/L17%2C conserved site (InterPro:IPR018260)%3B BEST Arabidopsis thaliana protein match is: Ribosomal protein L22p/L17e family protein (TAIR:AT1G67430.1)%3B Has 2094 Blast hits to 2094 proteins in 650 species: Archae - 321%3B Bacteria - 492%3B Metazoa - 519%3B Fungi - 182%3B Plants - 156%3B Viruses - 0%3B Other Eukaryotes - 424 (source: NCBI BLink).
Encodes a component of Replication Protein A. Component of transcriptional gene silencing which does not affect endogenous small RNA accumulation nor DNA methylation. Localized in the nucleus. Involved in DNA repair. Interacts physically with ROS1.
Encodes a homolog of Replication Protein A. rpa70b mutants are hypersensitive to UV-B radiation and MMS treatments suggesting a role for this protein in DNA damage repair.
Encodes a transcriptional factor TFIIIA required for transcription of 5S rRNA gene. 5S rRNA is the smallest constituent of the ribosome. Work on one of the gene models AT1G72050.2 showed that it encodes a protein with nine Cys(2)-His(2)-type zinc fingers%2C a characteristic feature of TFIIIA proteins. AT1G72050.2 also contains a 23 amino acid spacer between fingers 1 and 2%2C a 66 amino acid spacer between fingers 4 and 5%2C and a 50 amino acid non-finger C-terminal tail. in vitro assay demonstrated that AT1g72050.2 binds to 5S rDNA and efficiently stimulates the transcription of 5S rRNA. AT1g72050.2 also binds to 5S rRNA in vitro. AT1g72050.2 is located at several nuclear foci including the nucleolus and is absent from the cytoplasm.
Metal-dependent protein hydrolase%3B FUNCTIONS IN: molecular_function unknown%3B INVOLVED IN: biological_process unknown%3B LOCATED IN: mitochondrion%3B EXPRESSED IN: 24 plant structures%3B EXPRESSED DURING: 13 growth stages%3B CONTAINS InterPro DOMAIN/s: Metal-dependent protein hydrolase (InterPro:IPR003226)%3B BEST Arabidopsis thaliana protein match is: Metal-dependent protein hydrolase (TAIR:AT3G49320.1)%3B Has 677 Blast hits to 672 proteins in 331 species: Archae - 0%3B Bacteria - 213%3B Metazoa - 146%3B Fungi - 144%3B Plants - 55%3B Viruses - 0%3B Other Eukaryotes - 119 (source: NCBI BLink).
GO
domain
Definition
P-value
ribosome
cellular_component
"An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins." [ISBN:0198506732]
6.28e-10
ribosome biogenesis
biological_process
"A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of ribosome subunits; includes transport to the sites of protein synthesis." [GOC:ma]
2.60e-09
nucleolus
cellular_component
"A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome." [ISBN:0198506732]
9.42e-09
translation
biological_process
"The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA. Translation ends with the release of a polypeptide chain from the ribosome." [GOC:go_curators]
5.45e-08
structural constituent of ribosome
molecular_function
"The action of a molecule that contributes to the structural integrity of the ribosome." [GOC:mah]
5.48e-08
intracellular
cellular_component
"The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm." [ISBN:0198506732]
3.12e-07
RNA processing
biological_process
"Any process involved in the conversion of one or more primary RNA transcripts into one or more mature RNA molecules." [GOC:mah]
1.36e-06
rRNA processing
biological_process
"Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules." [GOC:curators]
1.43e-05
peptide biosynthetic process
biological_process
"The chemical reactions and pathways resulting in the formation of peptides, compounds of 2 or more (but usually less than 100) amino acids where the alpha carboxyl group of one is bound to the alpha amino group of another. This may include the translation of a precursor protein and its subsequent processing into a functional peptide." [CHEBI:16670, GOC:dph, GOC:jl]
1.43e-05
protein targeting to mitochondrion
biological_process
"The process of directing proteins towards and into the mitochondrion, usually mediated by mitochondrial proteins that recognize signals contained within the imported protein." [GOC:mcc, ISBN:0716731363]
3.14e-05
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]
4.41e-05
ncRNA processing
biological_process
"Any process that results in the conversion of one or more primary non-coding RNA (ncRNA) transcripts into one or more mature ncRNA molecules." [GOC:mah]
6.74e-05
RNA methylation
biological_process
"Posttranscriptional addition of a methyl group to either a nucleotide or 2'-O ribose in a polyribonucleotide. Usually uses S-adenosylmethionine as a cofactor." [GOC:hjd]
6.84e-05
nitrogen compound metabolic process
biological_process
"The chemical reactions and pathways involving organic or inorganic compounds that contain nitrogen, including (but not limited to) nitrogen fixation, nitrification, denitrification, assimilatory/dissimilatory nitrate reduction and the interconversion of nitrogenous organic matter and ammonium." [CHEBI:51143, GOC:go_curators, GOC:jl, ISBN:0198506732]
1.12e-04
ncRNA metabolic process
biological_process
"The chemical reactions and pathways involving non-coding RNA transcripts (ncRNAs)." [GOC:mah]
1.25e-04
RNA binding
molecular_function
"Interacting selectively and non-covalently with an RNA molecule or a portion thereof." [GOC:mah]
2.06e-04
ribonucleoprotein complex
cellular_component
"A macromolecular complex containing both protein and RNA molecules." [GOC:krc]
3.08e-04
mRNA splicing, via spliceosome
biological_process
"The joining together of exons from one or more primary transcripts of messenger RNA (mRNA) and the excision of intron sequences, via a spliceosomal mechanism, so that mRNA consisting only of the joined exons is produced." [GOC:krc, ISBN:0198506732, ISBN:0879695897]
5.61e-04
ribosome assembly
biological_process
"The aggregation, arrangement and bonding together of the mature ribosome and of its subunits." [GOC:ma]
5.61e-04
cytosolic large ribosomal subunit
cellular_component
"The large subunit of a ribosome located in the cytosol." [GOC:mtg_sensu]
6.39e-04
ribonucleoprotein complex assembly
biological_process
"The aggregation, arrangement and bonding together of proteins and RNA molecules to form a ribonucleoprotein complex." [GOC:jl]
6.99e-04
cytosolic ribosome
cellular_component
"A ribosome located in the cytosol." [GOC:mtg_sensu]
1.12e-03
maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
biological_process
"Any process involved in the maturation of a precursor Small SubUnit (SSU) ribosomal RNA (rRNA) molecule into a mature SSU-rRNA molecule from the pre-rRNA molecule originally produced as a tricistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, 5.8S rRNA, and the Large Subunit (LSU) in that order from 5' to 3' along the primary transcript." [GOC:curators]
2.42e-03
rRNA binding
molecular_function
"Interacting selectively and non-covalently with ribosomal RNA." [GOC:jl]
2.82e-03
tRNA modification
biological_process
"The covalent alteration of one or more nucleotides within a tRNA molecule to produce a tRNA molecule with a sequence that differs from that coded genetically." [GOC:curators]
5.27e-03
ribosomal large subunit biogenesis
biological_process
"A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a large ribosomal subunit; includes transport to the sites of protein synthesis." [GOC:jl]
6.73e-03
RNA splicing
biological_process
"The process of removing sections of the primary RNA transcript to remove sequences not present in the mature form of the RNA and joining the remaining sections to form the mature form of the RNA." [GOC:krc, GOC:mah]
6.84e-03
nucleic acid binding
molecular_function
"Interacting selectively and non-covalently with any nucleic acid." [GOC:jl]
7.31e-03
RNA splicing, via transesterification reactions
biological_process
"Splicing of RNA via a series of two transesterification reactions." [GOC:krc]
9.22e-03
RNA metabolic process
biological_process
"The cellular chemical reactions and pathways involving RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage." [ISBN:0198506732]
1.01e-02
nucleus
cellular_component
"A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent." [GOC:go_curators]
1.21e-02
macromolecule biosynthetic process
biological_process
"The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [CHEBI:33694, GOC:mah]
1.25e-02
cellular biosynthetic process
biological_process
"The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:jl]
1.25e-02
cellular protein metabolic process
biological_process
"The chemical reactions and pathways involving a specific protein, rather than of proteins in general, occurring at the level of an individual cell. Includes cellular protein modification." [GOC:jl]
1.25e-02
nucleobase-containing compound metabolic process
biological_process
"Any cellular metabolic process involving nucleobases, nucleosides, nucleotides and nucleic acids." [GOC:ai]
1.38e-02
cytoplasmic translation
biological_process
"The chemical reactions and pathways resulting in the formation of a protein in the cytoplasm. This is a ribosome-mediated process in which the information in messenger RNA (mRNA) is used to specify the sequence of amino acids in the protein." [GOC:hjd]
1.78e-02
viral nucleocapsid
cellular_component
"The complete protein-nucleic acid complex that is the packaged form of the genome in a virus particle." [ISBN:0781702534]
2.09e-02
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]
2.70e-02
regulation of cell cycle
biological_process
"Any process that modulates the rate or extent of progression through the cell cycle." [GOC:ai, GOC:dph, GOC:tb]
2.70e-02
endopeptidase activity
molecular_function
"Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain." [http://merops.sanger.ac.uk/about/glossary.htm#ENDOPEPTIDASE]
2.95e-02
tRNA processing
biological_process
"The process in which a pre-tRNA molecule is converted to a mature tRNA, ready for addition of an aminoacyl group." [GOC:jl, PMID:12533506]
3.08e-02
DNA replication
biological_process
"The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by initiation proteins, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA." [GOC:mah]
3.18e-02
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]
3.18e-02
mRNA metabolic process
biological_process
"The chemical reactions and pathways involving mRNA, messenger RNA, which is responsible for carrying the coded genetic 'message', transcribed from DNA, to sites of protein assembly at the ribosomes." [ISBN:0198506732]
3.18e-02
small-subunit processome
cellular_component
"A large ribonucleoprotein complex that is an early preribosomal complex. In S. cerevisiae, it has a size of 80S and consists of the 35S pre-rRNA, early-associating ribosomal proteins most of which are part of the small ribosomal subunit, the U3 snoRNA and associated proteins." [GOC:krc, GOC:vw, PMID:12068309, PMID:12957375, PMID:15120992, PMID:15590835]
3.18e-02
circadian rhythm
biological_process
"Any biological process in an organism that recurs with a regularity of approximately 24 hours." [GOC:bf, GOC:go_curators]
3.21e-02
mRNA processing
biological_process
"Any process involved in the conversion of a primary mRNA transcript into one or more mature mRNA(s) prior to translation into polypeptide." [GOC:mah]
3.91e-02
cytosolic small ribosomal subunit
cellular_component
"The small subunit of a ribosome located in the cytosol." [GOC:mtg_sensu]
4.00e-02
ribosomal large subunit assembly
biological_process
"The aggregation, arrangement and bonding together of constituent RNAs and proteins to form the large ribosomal subunit." [GOC:jl]
4.12e-02
cellular aromatic compound metabolic process
biological_process
"The chemical reactions and pathways involving aromatic compounds, any organic compound characterized by one or more planar rings, each of which contains conjugated double bonds and delocalized pi electrons, as carried out by individual cells." [GOC:ai, ISBN:0198506732]
4.12e-02
regulation of flower development
biological_process
"Any process that modulates the frequency, rate or extent of flower development." [GOC:go_curators]
4.12e-02
large ribosomal subunit
cellular_component
"The larger of the two subunits of a ribosome. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site)." [ISBN:0198506732]