Status
[August 2018] The Rhodocollybia butyracea CCBS 279 genome was sequenced using PacBio, assembled with Falcon v1.8.8, and annotated with the JGI Annotation Pipeline. Mitochondrial geneome was assembled separately and is available in the Download section.
Summary statistics for the Rhodocollybia butyracea v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 78.81 |
| Sequencing read coverage depth | 45.84x |
| # of contigs | 1836 |
| # of scaffolds | 1836 |
| # of scaffolds >= 2Kbp | 1789 |
| Scaffold N50 | 166 |
| Scaffold L50 (Mbp) | 0.11 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 1.19, 1.12, 0.66 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 56349 | 49824 | 88.4% |
| Ests | est.fasta | 57473134 | 55025664 | 95.7% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1663 | 1426 |
| transcript | 1331 | 1125 |
| exon | 226 | 140 |
| intron | 70 | 56 |
| description: | ||
| protein length (aa) | 397 | 326 |
| exons per gene | 5.90 | 5 |
| # of gene models | 19884 |
Collaborators
- Francis Martin, INRA Nancy, France
- Petr Baldrian, Institute of Microbiology of the CAS, Czech Republic
Links
- 1000 Fungal Genomes Project
- JGI PhyloGroup Portals: Fungi Dikarya Basidiomycota Agaricomycotina Agaricomycetes Agaricales
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.
