Status
[Feb 2016] The Sporidiobolus pararoseus genome was sequenced using the Illumina platform and assembled with AllPathsLG release version R49403 (Gnerre et al., 2011). Mitochondrial genome was assembled separately and is available in the downloads section.
Summary statistics for the Sporidiobolus pararoseus v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 21.10 |
| Sequencing read coverage depth | 123.5x |
| # of contigs | 332 |
| # of scaffolds | 319 |
| # of scaffolds >= 2Kbp | 266 |
| Scaffold N50 | 34 |
| Scaffold L50 (Mbp) | 0.19 |
| # of gaps | 13 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 0.52, 0.46, 0.45 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 24582 | 23416 | 95.3% |
| Ests | est.fasta | 143994873 | 122999095 | 85.4% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 2073 | 1775 |
| transcript | 1687 | 1432 |
| exon | 291 | 180 |
| intron | 83 | 73 |
| description: | ||
| protein length (aa) | 483 | 390 |
| exons per gene | 5.80 | 5 |
| # of gene models | 8378 |
Collaborators
Kyria
Boundy-Mills, University of California - Davis
Jon
Magnuson, Pacific Northwest National Laboratory, USA
Joseph
Spatafora, Oregon State University, USA
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.
