A new dynamic page, GeneRegulationView, displays all the regulatory factors for a given gene; it can be reached via the lefthand menu on a GeneView page where the gene has regulatory information available.
Read more...
"What's New" items from releases prior to the new website design have been imported into the database, and can now be accessed through a new dynamic page, NewsView.
Read more...
The statistics table on each species home page now shows the correct date of the last full genebuild, rather than the date of the last database update.
Read more...
The 'schema version' entries in the core 'meta' table have been changed to hold the current version numbers. This allows the API to check that the software and databases are using the same versions and give meaningful error messages.
This release of Ciona intestinalis data is assembled into scaffolds, so there are no chromosomes available to browse. Use the BLAST and SSAHA links in the left hand menu bar to locate data.
A few example data points :
Ciona intestinalis version 1.95 [details] is a whole genome shotgun assembly released by the JGI.
The Ciona genome is the smallest of any experimentally manipulable chordate, and thus provides a good system for exploring vertebrate evolutionary origins. This Ensembl website presents the sequence data provided by the JGI, with additional Ensembl genebuild (see below).
The assembly release version 1.95 of the whole genome shotgun reads was constructed with the JAZZ assembly, using paired end sequencing reads at a coverage of 11X. After trimming for vector and quality, 3.9 million reads assembled into 2242 scaffolds, totaling 117 Mb. Roughly half the genome is contained in 136 scaffolds at least 234 kb in length.
The standard Ensembl mammalian pipeline was modified for annotation of the Ciona genome, owing to the lack of genomic information from closely-related species. Thus, in addition to aligning known Ciona proteins to the sequence (as per the standard pipeline), we aligned the large quantities of Ciona-specific cDNA and EST sequences against the genome, and then used protein data from other species to build additional gene models. More details of the genebuild process...
Photo: www.ascidians.com
© 2008 WTSI / EBI. Ensembl is available to download for public use - please see the code licence for details.
