Ensembl IDHistoryView
Introduction
Ensembl 'IDHistoryView' allows an ID to be "tracked" with respect to the current version of Ensembl. 'IDHistoryView'provides detailed information about the evolution of Ensembl IDs for a particular entry. With every new updated Ensembl release, Ensembl IDs (gene, transcript or peptide ID) may change depending on new sequence information and new protein/peptide information available in public databases used in the genebuild. If IDs merge, the retired IDs will be shown in the ID History Map below, or can be found by using the 'Find Current Stable ID for older identifiers' link at the left.
ID History Report
Ensembl genes are annotated by the Ensembl automatic analysis pipeline (Curwen et al., 2004) using either a GeneWise (Birney et al., 2004) model from a species-specific or vertebrate protein, a set of aligned species-specific cDNAs followed by GenomeWise for ORF prediction or from GENSCAN exons supported by protein, cDNA and EST evidence. GeneWise models are further combined with available aligned cDNAs to annotate UTRs.
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Stable ID Gene names are obtained by comparing its translations to entries in UniProt/Swiss-Prot, NCBI RefSeq and UniProt/TrEMBL. For further details see the 'Similarity Matches' section of 'Transcript Reports' below. A single name is selected for display, and the source is shown. Preferentially, a gene symbol approved by the species-specific nomenclature committee is chosen (e. g. the appropriate HUGO HGNC symbol for human). Failing that, a UniProt/Swiss-Prot identifier, a NCBI RefSeq accession number or a UniProt/TrEMBL accession number is assigned.
Ensembl stable gene identifiers are mapped between releases. In case a gene model changes dramatically, the old stable identifier may be retired and a new one assigned. However, the Ensembl Archive tracks all stable identifiers and should provide mappings to the current gene predictions.
- Status - A link to the current version of the gene is provided
- Last remapped - Assembly and database version of the last mapping process undertaken for this gene.
- Archive - "This version is current" will be displayed if you are looking at the latest version of the gene or a link to the archive will be provided.
ID History Map
An ID History Map is included showing the release number on the x axis and stable IDs on the y axis. Small squares or nodes correspond to the ID shown on the left, and represent an update in the version of the ID. Nodes (squares) are connected by a line if the versions are related. This line reflects the score of how well the versions match, for recent releases (if a score is not calculated, the line will be grey (unknown)).
The score reflects how similar two sequences between the nodes are. (Max is 1 or 100%).
Click on a node for a pop-up window with more information about the gene, ID version and assembly used.
To match IDs from one release to another, a link is provided to the ‘History View’ page (‘Find Current Stable ID for older identifiers’) in the left hand navigation column. Here you can upload up to 30 IDs from any release and retrieve the IDs from current and previous releases.