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Organellar Genome Databases

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This is a collection of organelle genome databases

[info] Organellar Genome Megasequencing Program
[info] GOBASE - The Organelle Genome Database
[info] MITOP - human mouse and yeast mitochondrial database
[info] MITOMAP: A Mitochondrial DNA database
[info] MitoDat - Mendelian Inheritance and the Mitochondrion
[info] MitBASE - a Comprehensive and Integrated Mitochondrial DNA Database
[info] Human Mitochondrial DNA Concordance
[info] MmtDB: A Metazoa mitochondrial DNA Variants DataBase

Detailed information on the above options

Organellar Genome Megasequencing Program
This is a set of databases which include Images (organisms, genetic maps, etc.), whole genome sequences, Megasequencing Unit data, organelle sequence subsets of GenBank and EMBL. It is maintained by the Megasequencing Center, University of Montreal.

GOBASE - The Organelle Genome Database
GOBASE is a taxonomically broad organelle genome database that organizes and integrates diverse data related to organelles. The current version focuses on the mitochondrial subset of data. In its second phase, GOBASE will also include information on chloroplasts and representative bacteria that are thought to be specifically related to the bacterial ancestors of mitochondria and chloroplasts.

MITOP - human mouse and yeast mitochondrial database
ITOP combines all relevant information concerning genetic, functional and human-pathological aspects of the central role of mitochondria in the organism, with an emphasis on nuclear encoded proteins.

MITOP offers specific search facilities subdivided into functional category classification, protein classes and complexes, subcellular localizations, EC numbers, molecular weight and isoelectric points, Prosite motifs and non-protein entries. It includes a homology search for each protein using a precomputed FASTA.

MITOMAP: A Mitochondrial DNA database
This gives information on the human mitochondrion genome, including DNA Functional Map, DNA Variation, DNA Mutations and Disease, Somatic Mitochondrial DNA Mutations in Aging and Degenerative Diseases, and references.

MitoDat - Mendelian Inheritance and the Mitochondrion
Dedicated to the nuclear genes specifying the enzymes, structural proteins and other proteins involved in mitochondrial biogenesis and function.

MitBASE - a Comprehensive and Integrated Mitochondrial DNA Database
Aims and Structure

Human Mitochondrial DNA Concordance
The analysis of the hypervariable control region of human mitochondrial DNA (mtDNA) has proved to be a useful tool for forensic scientists, population and evolutionary biologists, and anthropologists. This interest is particularly acute with the identification of unknown individuals, where a series of mitochondrial substitutions is often compared with groups of sequences from characterized populations that are, in some instances, marked by particular substitution motifs. However, the number of individuals screened in recent years has greatly expanded and it has become increasingly difficult to access sequence data quickly and easily.

While working on mitochondrial DNA analysis we realised that although a great deal of sequence data is available from sources such as the genetic database GenBank, the form in which it is presented makes it difficult to analyze. What was needed was a resource which shows each substitution in the context of every complete sequence where it appears, together with numerical and statistical information. Such a resource is called a concordance.

MmtDB: A Metazoa mitochondrial DNA Variants DataBase
MmtDB is a specialised database of Metazoa mitochondrial DNA variants. MmtDB is not simply a collection of Metazoa mitochondrial DNA sequences but a collection of the VARIANTS due to the highly polymorphic feature of mtDNA. A variant is therefore, for each species of the class Metazoa, a fragment where nucleotide differences (variations) are detected as compared to a reference sequence.

The information associated to each variant sequence are: analysed region, experimental method, tissue and cell lines, population data, sex, age, family code and variation events (nucleotide position, involved gene, variation type, restriction site's gain or loss). Cross-references to the EMBL and GenBank data banks and also internal cross-references among the MmtDB entries have been added.

Any Comments, Questions? Support@hgmp.mrc.ac.uk