Status
(May 2015) The Torpedospora radiata JK5252C genome was sequenced using Illumina and assembled using AllPathsLG (Gnerre et al. 2010).
Summary statistics for the Torpedospora radiata JK5252C
v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 33.20 |
| Sequencing read coverage depth | 93.7 |
| # of contigs | 682 |
| # of scaffolds | 96 |
| # of scaffolds >= 2Kbp | 77 |
| Scaffold N50 | 10 |
| Scaffold L50 (Mbp) | 1.30 |
| # of gaps | 586 |
| % of scaffold length in gaps | 2.4% |
| Three largest Scaffolds (Mbp) | 3.34, 2.43, 1.77 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Other | JGI_RNA_contigs | 31302 | 29336 | 93.7% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1670 | 1375 |
| transcript | 1513 | 1229 |
| exon | 571 | 368 |
| intron | 97 | 66 |
| description: | ||
| protein length (aa) | 423 | 327 |
| exons per gene | 2.65 | 2 |
| # of gene models | 11634 |
Collaborators
Derek Johnson, Oregon State University
Joey Spatafora, Oregon State University
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.
