Click on a chromosome for a closer view
The Tetraodon genome project is a collaboration between Genoscope and the Broad Institute (MIT). This Ensembl website presents sequence data and analyses provided by the two institutes.
The project was supported by the Consortium National de Recherche en Genomique and the National Human Genome Research Institute.
The genome assembly was performed using Arachne (Jaffe D.B. et. al. 2003. Gen. Res. 13, 91-96). This site presents version 8 of the assembly. The assembly has been improved compared to version 7 by using a new fosmid library (around 6x of clone coverage).
Gene annotation by Genoscope has been imported. The new geneset was built (V8.2) including the large collection of Teleostei public ESTs, the latest Uniprot version, and a variety of other predictions. The final gene models were designed using the Gaze framework.combining evidence from Geneid, Genscan, Genewise and Exofish predictions with alignments of Tetraodon cDNAs to the genome. This was done automatically using GAZE (Howe K., Chothia T. and Durbin R. 2002. Gen. Res. 12, 1418-27) with a custom-designed configuration and gene structure model. Preliminary stable ids mapping for genes from the V7 to the V8.2 sets has been done using the EnsEMBL stable id mapping system.
In addition to the imported annotation, genscan ab initio predictions, alignments to Uniprot, Unigene and EMBL vertRNA, repeats, CpG island predictions and Eponine TSS predictions generated by the standard EnsEMBL pipeline are displayed.
© 2008 WTSI / EBI. Ensembl is available to download for public use - please see the code licence for details.
