PlantRNA, a database for tRNAs of photosynthetic eukaryotes

PlantRNA, a database for tRNAs of photosynthetic eukaryotes

PlantRNA database (http://plantrna.ibmp.cnrs.fr/) compiles transfer RNA (tRNA) gene sequences retrieved from fully annotated plant nuclear, plastidial and mitochondrial genomes. The set of annotated tRNA gene sequences has been manually curated for maximum quality and confidence. The novelty of this...

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Published in:Nucleic acids research Vol. 41; no. Database issue; pp. D273 - D279
Main Authors: Cognat, Valérie, Pawlak, Gaël, Duchêne, Anne-Marie, Daujat, Magali, Gigant, Anaïs, Salinas, Thalia, Michaud, Morgane, Gutmann, Bernard, Giegé, Philippe, Gobert, Anthony, Maréchal-Drouard, Laurence
Format: Journal Article
Language:English
Published: England Oxford University Press 01-01-2013
Subjects:
Bryopsida - genetics
Chlorophyta - genetics
Cyanophora - genetics
Databases, Nucleic Acid
Diatoms - genetics
Enzymes - genetics
Enzymes - metabolism
Genome, Mitochondrial
Genome, Plant
Genome, Plastid
Internet
Life Sciences
Magnoliopsida - genetics
Phaeophyceae - genetics
Photosynthesis - genetics
Plants - genetics
RNA, Plant - chemistry
RNA, Plant - genetics
RNA, Plant - metabolism
RNA, Transfer - chemistry
RNA, Transfer - genetics
RNA, Transfer - metabolism
Stramenopiles - genetics
User-Computer Interface
Vegetal Biology
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Summary:PlantRNA database (http://plantrna.ibmp.cnrs.fr/) compiles transfer RNA (tRNA) gene sequences retrieved from fully annotated plant nuclear, plastidial and mitochondrial genomes. The set of annotated tRNA gene sequences has been manually curated for maximum quality and confidence. The novelty of this database resides in the inclusion of biological information relevant to the function of all the tRNAs entered in the library. This includes 5'- and 3'-flanking sequences, A and B box sequences, region of transcription initiation and poly(T) transcription termination stretches, tRNA intron sequences, aminoacyl-tRNA synthetases and enzymes responsible for tRNA maturation and modification. Finally, data on mitochondrial import of nuclear-encoded tRNAs as well as the bibliome for the respective tRNAs and tRNA-binding proteins are also included. The current annotation concerns complete genomes from 11 organisms: five flowering plants (Arabidopsis thaliana, Oryza sativa, Populus trichocarpa, Medicago truncatula and Brachypodium distachyon), a moss (Physcomitrella patens), two green algae (Chlamydomonas reinhardtii and Ostreococcus tauri), one glaucophyte (Cyanophora paradoxa), one brown alga (Ectocarpus siliculosus) and a pennate diatom (Phaeodactylum tricornutum). The database will be regularly updated and implemented with new plant genome annotations so as to provide extensive information on tRNA biology to the research community.
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The authors wish it to be known that, in their opinion, the first two authors should be regarded as joint First Authors.
ISSN:0305-1048
1362-4962
DOI:10.1093/nar/gks935