Status
[September 2018] The Aphanobasidium pseudotsugae OMC1630 genome was sequenced using Pacbio, assembled with Falcon (v1.8.8), and annotated using the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available on the Download page.
Summary statistics for the Aphanobasidium pseudotsugae
OMC1630 v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 32.20 |
| Sequencing read coverage depth | 416.01x |
| # of contigs | 159 |
| # of scaffolds | 159 |
| # of scaffolds >= 2Kbp | 157 |
| Scaffold N50 | 21 |
| Scaffold L50 (Mbp) | 0.54 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 1.77, 1.04, 0.98 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 45792 | 44165 | 96.4% |
| Ests | est.fasta | 94128223 | 92969764 | 98.8% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1943 | 1684 |
| transcript | 1582 | 1361 |
| exon | 243 | 149 |
| intron | 67 | 59 |
| description: | ||
| protein length (aa) | 460 | 375 |
| exons per gene | 6.51 | 5 |
| # of gene models | 11120 |
Collaborators
- Otto Miettinen, University of Helsinki, Finland
- Francis Martin, INRA Nancy, France
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.
