Mitochondrial genome annotation software tools | DNA analysis
About 2000 completely sequenced mitochondrial genomes are available from the NCBI RefSeq data base together with manually curated annotations of their protein-coding genes, rRNAs, and tRNAs. This annotation information, which has accumulated over two decades, has been obtained with a diverse set of computational tools and annotation strategies.
Allows automatic annotation of metazoan mitochondrial genomes. MITOS is a pipeline designed to compute a consistent de novo annotation of the mitogenomic sequences. The software allows for a systematic error screening, the standardisation of gene name and gene boundary designation, anticodon labelling of tRNAs, and provides the means for the assessment of the validity of a gene assignment.
Assists in the annotation of genes and tRNAs in seed plant mitochondrial genomes. Mitofy provides annotations for complete mitochondrial genome sequences and RNA editing data for Ci. lanatus (watermelon) and Cucurbita pepo (zucchini).
Provides an annotation pipeline through a web application. MitoAnnotator automatically annotates fish mitogenomes and can be used for the re-annotation of previously sequenced fish mitogenomes. This software proceeds by first locating the tRNA PHE gene within the input sequence and corrects the coordinates to place the tRNA PHE gene in the first position. The annotations results can be directly incorporated into public sequence repository services.
Generates high-quality annotations in a default mode using a curated reference gene set. GeSeq enables user to upload proprietary, most up to-date or novel feature-containing reference sets. This tool urges user to curate gene annotations that failed or are particularly tricky as well as tiny exons or rapidly evolving genes. It can show independent annotations by the best-matching reference sequences and its corresponding profile Hidden Markov Model (HMM) hit or third party tRNA annotators.
It is developed for predicting mitochondrial proteins of malaria parasite Plasmodium falciparum. This server allows user to submit multiple sequences in FASTA format for predicting Plasmodium falciparum mitochondrial proteins.
Assists users with disease related mutations. MitoGIS is an application that provides a gene and region-based search. It can also annotate mutations identified using next generation sequencing (NGS) approach.
Serves as an organellar gene annotator that uses reference sequence similarity. AGORA is based on a BLAST search compared with a user-selected reference sequence. This software is user-optimized for selected genomes and organism categories. It offers an annotation feature for the functional genes in almost all mitochondrion and plastid genomes of eukaryotes, and for genome with an exon-intron structure within a gene or inverted repeat region.