The prototype ENA Marker Portal has been launched as an entry point into sequence data arising from the sequencing of marker loci across multiple species and strains. Marker data can be filtered taxonomically and by locus name, for which we have implemented a system that resolves the diversity of labels that are typically applied to the same locus across taxa and studies.
Using the ENA Marker Portal
Select the marker of interest and the taxon of interest. If you wish to search for marker sequences over a portion of the taxonomic tree, check “Include subordinate taxa”.
After hitting the search button, you will get a list of available results. Expand the coding results and you will see a selection of three different types of results: records, report and marker.
The records tab provides the traditional list of ENA accessions and descriptions, with links to each record page in the browser. There are also options to display, or download, the full (or partial) list of sequences in text, XML or FASTA formats.
The report tab shows a table of metadata for each record. A subset of the available metadata columns is displayed by default and this can be altered by choosing “Select columns”. The selected columns can also be displayed or downloaded in tab separated text format.
The marker tab shows a visual rendering of the portion of the taxonomic tree that was searched. For display reasons, this has been limited to a maximum depth of three tax nodes. Each taxon is coloured based on the number of sequences available for each taxon (relative to the search conditions, NOT with respect to overall marker sequences available in ENA). A grey taxon has no marker sequences and the remaining are coloured from light to dark blue with a darker colour meaning more available sequences. Hovering the mouse over any taxon in the tree will display the full scientific name, with the number of available sequences, to the right of the graphic. All counts used for the tree are based on sequences available for the taxon in question as well as all subordinate taxa. While the graphic is limited to a maximum depth of three nodes, the full taxonomic tree for the result can be obtained via the links to display, or download, the result in text format.