doi: 10.1093/nar/gkm987. Epub 2007 Nov 14.
The vertebrate genome annotation (Vega) database
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- PMID:18003653
- PMCID: PMC2238886
- DOI: 10.1093/nar/gkm987
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The vertebrate genome annotation (Vega) database
L G Wilming et al. Nucleic Acids Res.2008 Jan.
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Abstract
The Vertebrate Genome Annotation (Vega) database (http://vega.sanger.ac.uk) was first made public in 2004 and has been designed to view manual annotation of human, mouse and zebrafish genomic sequences produced at the Wellcome Trust Sanger Institute. Since its initial release, the number of human annotated loci has more than doubled to close to 33 000 and now contains comprehensive annotation on 20 of the 24 human chromosomes, four whole mouse chromosomes and around 40% of the zebrafish Danio rerio genome. In addition, we offer manual annotation of a number of haplotype regions in mouse and human and regions of comparative interest in pig and dog that are unique to Vega.
Figures
Part of the GeneView Locus Report showing versioning information and CCDS and nomenclature (in this case HGNC) information and links. Edited fromhttp://vega.sanger.ac.uk/Homo_sapiens/geneview?gene=OTTHUMG00000008264&db=core .
Ensembl release 46 page showing the gold-coloured Ensembl-Vega gene merge loci (top: Overview) and transcripts (bottom: Detailed view). Edited fromhttp://www.ensembl.org/Homo_sapiens/contigview?c=1:39255078;w=63203 .
Zebrafish haplotype clones are marked in yellow (Top level and Navigational overview panels above). In MultiContigView, annotation can be shown on both reference and haplotype simultaneously with lines linking homologous genes (Detailed View panel above). This view is accessible by choosing the desired second dataset from the ‘View alongside’ menu from the left-hand menu/navigation bar in ContigView (not shown). Edited fromhttp://vega.sanger.ac.uk/Danio_rerio/multicontigview?sr1=H_4_11;s1=Danio_rerio;c=4:8468245;w=44415 .
MultiContigView of a region of the pig and dog MHC. Lines link computationally determined orthologues in the Detailed View. This view is accessible by choosing the desired second dataset from the ‘View alongside’ menu from the left-hand menu/navigation bar in pig ContigView (not shown). Edited fromhttp://vega.sanger.ac.uk/Sus_scrofa/multicontigview?sr1=6;s1=Homo_sapiens;c=7-MHC:1296785;w=19183 .
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