Status
[October 2016] The Coccodinium bartschii genome was
sequenced using the Illumina platform and assembled with AllPathsLG
release version R47710 (Gnerre
et al., 2010).
Mitochondrial genome was assembled separately and is available in
the downloads section.
Summary statistics for the Coccodinium bartschii CBS
121709 v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 28.27 |
| Sequencing read coverage depth | 66.8x |
| # of contigs | 338 |
| # of scaffolds | 79 |
| # of scaffolds >= 2Kbp | 59 |
| Scaffold N50 | 7 |
| Scaffold L50 (Mbp) | 1.75 |
| # of gaps | 259 |
| % of scaffold length in gaps | 1.2% |
| Three largest Scaffolds (Mbp) | 2.81, 2.72, 2.19 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | RNNotator assembled Illumina ESTs | 22158 | 21881 | 98.7% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1764 | 1540 |
| transcript | 1628 | 1401 |
| exon | 744 | 428 |
| intron | 116 | 67 |
| description: | ||
| protein length (aa) | 461 | 379 |
| exons per gene | 2.19 | 2 |
| # of gene models | 9532 |
Collaborators
Joseph Spatafora, Oregon State University, USA
Pedro Crous and Manfred Binder at CBS-KNAW, The Netherlands.
Funding
The work conducted by the U.S. Department of Energy Joint Genome
Institute, a DOE Office of Science User Facility, is supported by
the Office of Science of the U.S. Department of Energy under
Contract No. DE-AC02-05CH11231.
