Ciona intestinalis (sometimes known by the common name of vase tunicate) is an ascidian (sea squirt), and one of the closest invertebrate relatives of vertebrates. It is used as a model invertebrate chordate in developmental biology and genomics; its genome is the smallest of any experimentally manipulable chordate, and thus provides a good system for exploring vertebrate evolutionary origins.
The Ciona intestinalis 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 Kyoto University, with additional Ensembl genebuild (see below).
The current size of the assembly (which includes unmapped scaffolds) is 115Mb, with 78Mb of the assembly mapped to chromosome arms The N50 size is the length such that 50% of the assembled genome lies in blocks of the N50 size or longer. The N50 size of scaffolds is 98.07 kb.
The genome assembly represented here corresponds to GenBank Assembly ID GCA_000224145.1
- JGI2 (Ensembl release 54)
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 genome sequence (as per the standard pipeline), the large quantities of Ciona-specific cDNA and EST sequences were aligned against the genome and then protein data from other species was used to build additional gene models.
In addition to the coding transcript models, non-coding RNAs and pseudogenes were annotated.
General information about this species can be found in Wikipedia.
|Assembly||KH, INSDC Assembly GCA_000224145.1, Apr 2011|
|Golden Path Length||115,226,814|
|Annotation method||Full genebuild|
|Genebuild started||Aug 2011|
|Genebuild released||Mar 2012|
|Genebuild last updated/patched||Aug 2012|
|Genscan gene predictions||10,697|