Displays static individual 2D structures of human mitochondrial tRNA genes with location of polymorphisms and pathology-related point mutations. Mamit-tRNA is a database for mammalian mitochondrial genomes and has been developed for deciphering structural features of mammalian mitochondrial tRNAs. The database is expected to facilitate exploration of structure/function relationships of mitochondrial tRNAs and to assist clinicians in the frame of pathology-related mutation assignments.
Disseminates comparative sequence and structure models and data. CRW is an online RNA sequence and structure information, the result of extensive analysis, interpretation, data collection, and a computer and web development program. The four major types of comparative information and systems available for the three ribosomal RNAs (5S, 16S, and 23S rRNA), transfer RNA (tRNA), and two of the catalytic intron RNAs (group I and group II) are: (i) Current Comparative Structure Models, (ii) Nucleotide Frequency and Conservation Information, (iii) Sequence and Structure Data and (iv) Data Access Systems.
Provides overview statistics of tRNA genes within each analyzed genome, including information by isotype and genetic locus, easily downloadable primary sequences, graphical secondary structures and multiple sequence alignments. Direct links for each gene to UCSC eukaryotic and microbial genome browsers provide graphical display of tRNA genes in the context of all other local genetic information. The database can be searched by primary sequence similarity, tRNA characteristics or phylogenetic group.
Identifies tDNAs, finds fragments of those tDNAs in the same replicon and removes unlikely candidate islands through a series of filters. The website Islander presents these precisely mapped candidate islands, the gene content and the island sequence. The algorithm further insists that each island encode an integrase, and attachment site sequence identity is carefully noted; therefore, the database also serves in the study of integrase site-specificity and its evolution.
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.
A transfer RNA database. tRNADB-CE was constructed by analyzing 1,966 complete and 5,272 draft genomes of prokaryotes, 171 viruses', 121 chloroplasts', and 12 eukaryotes' genomes plus fragment sequences obtained by metagenome studies of environmental samples. One important characteristic of tRNADB-CE is inclusion of tRNAs found in a large number of partially sequenced genomes.
Offers data about mammalian mitochondrial tRNA sequences. mitotRNAdb allows implementation and validation of algorithms and can process to automated nucleic acid data transfer. It combines tRNA gene sequences and classifies them in two categories: ‘Genomic tRNA Compilation’ and ‘Compilation of tRNA Genes’. The database includes tRNA-like structures (TLSs) encoded in viruses and phages.