Status
[Sep 2013] The Gymnascella citrina genome was sequenced using the Illumina platform and assembled with AllPathsLG release version R42328 (Gnerre et al., 2010).
Summary statistics for the Gymnascella citrina NRRL 5970
v1.1 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 25.16 |
| Sequencing read coverage depth | 146.5x |
| # of contigs | 305 |
| # of scaffolds | 272 |
| # of scaffolds >= 2Kbp | 243 |
| Scaffold N50 | 34 |
| Scaffold L50 (Mbp) | 0.23 |
| # of gaps | 33 |
| % of scaffold length in gaps | 0.1% |
| Three largest Scaffolds (Mbp) | 0.86, 0.63, 0.59 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | RNNotator assembled Illumina ESTs | 27331 | 26436 | 96.7% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1719 | 1455 |
| transcript | 1556 | 1306 |
| exon | 520 | 315 |
| intron | 84 | 63 |
| description: | ||
| protein length (aa) | 443 | 357 |
| exons per gene | 2.99 | 3 |
| # of gene models | 9779 |
Collaborators
Joseph
Spatafora, Oregon State University, USA
Kerry
O'Donnell, USDA, ARS.
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.
