Status
The nuclear genome was sequenced with PacBio, assembled with Flye, and annotated with the JGI Annotation Pipeline. The transcriptome was sequenced with Illumina and assembled with Trinity. The mitochondrial genome was assembled separately and is available on the Download page.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 34.52 |
| Sequencing read coverage depth | 135.97x |
| # of contigs | 32 |
| # of scaffolds | 32 |
| # of scaffolds >= 2Kbp | 32 |
| Scaffold N50 | 6 |
| Scaffold L50 (Mbp) | 2.73 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 3.44, 3.16, 2.85 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 69879 | 66904 | 95.7% |
| Ests | est.fasta | 157381468 | 156719491 | 99.6% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1854 | 1617 |
| transcript | 1526 | 1315 |
| exon | 241 | 148 |
| intron | 63 | 55 |
| description: | ||
| protein length (aa) | 443 | 357 |
| exons per gene | 6.34 | 5 |
| # of gene models | 12072 |
Collaborators
- Hui-Ling Liao at U. Florida
- Ko-Hsuan Chen at U. Florida
- Nhu Nguyen at U. Hawaii at Manoa
- Amanda Certano at U. Minnesota
- Brian Looney at Clark U
- Sara Branco at Montana State U.
- Peter Kennedy at U. Minnesota
- Rytas Vilgalys at Duke U.
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.
