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Transfer RNA gene detection software tools | Genome annotation

Transfer RNAs (tRNAs) play essential roles in cell viability. Beyond their major function in translating the genetic code, tRNAs are implicated in many other processes such as viral replication, amino acid biosynthesis or cell wall remodeling…
GV
Web
Desktop

GV GeneValidator

Automatically identifies problematic gene predictions and to aid manual…

Automatically identifies problematic gene predictions and to aid manual curation. For each gene, GV performs multiple analyses based on comparisons to gene sequences from large databases. The…

tRNAscan-SE
Desktop
Web

tRNAscan-SE

Search for tRNA genes in genomic sequence. tRNAscan-SE is routinely applied to…

Search for tRNA genes in genomic sequence. tRNAscan-SE is routinely applied to completed genomes, resulting in the identification of thousands of tRNA genes.

GtRNAdb
Dataset

GtRNAdb Genomic tRNA Database

Provides overview statistics of tRNA genes within each analyzed genome,…

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…

Islander
Dataset

Islander

Identifies tDNAs, finds fragments of those tDNAs in the same replicon and…

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…

tRNADB-CE
Dataset

tRNADB-CE tRNA Gene DataBase Curated by Experts

A transfer RNA database. tRNADB-CE was constructed by analyzing 1,966 complete…

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…

G T A T C G C T A
RNA workbench
Server

RNA workbench

Establishes a central, redistributable workbench for scientists and programmers…

Establishes a central, redistributable workbench for scientists and programmers working with RNA-related data. The RNA workbench builds a sustainable community around it. This platform is unique in…

MINTmap
Desktop

MINTmap MItochondrial and Nuclear TRF mapping

Identifies the subset of discovered transfer RNA fragments (tRFs) that could be…

Identifies the subset of discovered transfer RNA fragments (tRFs) that could be originating outside of tRNA space and flags them as candidate false positives. MINTmap is a method and a software…

tRNAdb
Dataset

tRNAdb Transfer RNA database

Contains currently more than 12,000 tRNA genes from 577 species and 623 tRNA…

Contains currently more than 12,000 tRNA genes from 577 species and 623 tRNA sequences from 104 species, classified into families according to amino acid specificity as defined by anticodon triplets.…

PlantRNA
Dataset

PlantRNA

Compiles transfer RNA (tRNA) gene sequences retrieved from fully annotated…

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…

ARAGORN
Desktop
Web

ARAGORN

Identifies tRNA and tmRNA genes. The program employs heuristic algorithms to…

Identifies tRNA and tmRNA genes. The program employs heuristic algorithms to predict tRNA secondary structure, based on homology with recognized tRNA consensus sequences and ability to form a…

ARWEN
Desktop
Web

ARWEN

A program to identify tRNA genes in metazoan mitochondrial nucleotide…

A program to identify tRNA genes in metazoan mitochondrial nucleotide sequences. ARWEN detects close to 100% of previously annotated genes. An online version, software for download and test results…

SPLITSdb
Dataset

SPLITSdb

Stores and retrieves complete set of tRNA sequences in all archaeal species and…

Stores and retrieves complete set of tRNA sequences in all archaeal species and primitive eukaryotic species to promote the next study of tRNA evolution and tRNA processing. SPLITSdb contains 3,741…

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