Mitochondrial DNA (mtDNA) exhibits extraordinary genetic and physical diversity across different eukaryotic lineages and among different cell and tissue types. Despite the notable variations in structural organization, the mitochondrial genome always encodes a small number of proteins essential to the oxidative phosphorylation complex.
Provides a collection of thirteen protein-coding and two ribosomal RNA genes sequences encoded in the mitochondrial genome. MIDORI is composed of mitochondria-related gene sequences, metazoan gene sequences and taxonomic ranking information onto each sequence. The database was constructed with nucleotide sequences from GenBank BLAST NT. It provides two different sections: Midori-UNIQUE, dedicated to unique haplotypes and Midori-LONGEST containing contains a single sequence: the longest.
Provides information about perfect, imperfect and compound Simple Sequence Repeats (SSRs). MitoSatPlant is an online resource of plant mitochondrial SSRs (mtSSRs). Additionally, Polymerase Chain Reaction (PCR) primers, statistical information such as density, average length of SSRs, frequencies of repeat type are also available. User can freely download the data available in this database which will help researchers to screen polymorphic markers in plant mitochondrial DNA.
Supports population genetics and mitochondrial disease studies. HmtDB hosts human mitochondrial genome sequences annotated with population and variability data, the latter being estimated through the application of the SiteVar/MitVarProt programs, based on site-specific nucleotide and aminoacid variability calculations. The annotations are manually curated thus adding value to the quality of the information provided to the end-user. Classifier tools implemented in HmtDB allow the prediction of the haplogroup for any human mitochondrial genome currently stored in HmtDB or externally submitted de novo by an end-user. Haplogroup definition is based on the Phylotree system. End-users accessing HmtDB are hence allowed to: (i) browse the database through a multi-criterion query system; (ii) analyse their own human mitochondrial sequences via the classify tool or by downloading the mt-classifier tool; (iii) download multi-alignments with reference genomes as well as variability data.
Deals with mitochondrial proteomics. MitoMiner is a gene-centric resource that integrates different types of subcellular localisation evidence with protein information from public resources. Searches can be made by text searches, predefined or customized queries by the use of the QueryBuilder module. It allows users to investigate mitochondrial proteins, with application in mitochondrial research, such as the ability of prioritize candidate mitochondrial disease genes.
A comprehensive online database of all SSRs (Simple Sequence Repeats) or STRs (Short Tandem Repeats) or Microsatellites from all sequenced Chloroplast and Mitochondrial genomes available so far across all the clades of life. SSRs are considered as important genomic elements and play a major role in the understanding the underpinnings of the evolution, linkage analysis and species discrimination. ChloroMitoSSRDB 2.0 provides a wide accessible platform for accessing the microsatellites patterns using the IMEx (Imperfect Microsatellite Extractor) and MISA and along with the primer pair information for the same. Additionally, the present version of the web-servers also allows the users to analyze the whole genome, genes and also NGS reads for the identification of the SSRs.
A database of curated fish mitochondrial sequences and presently covers mitogenome information of 1302 globally distributed fish species belonging to 297 families and 47 orders reported from saltwater and freshwater ecosystems. FMiR also contains other valuable information on each fish species such as habitat, distribution, occurrence, conservation status and taxonomy. FMiR is the workbench for finding SSR motifs, repeat orientation, sequence similarity search and annotation, identification of repeats loci and primer design. In addition, the database presents the relative abundance of microsatellite repeats in the mitogenomes. It is also possible to compare complete and individual components of genomes for deducing variation across fish species.