Status
[September 2020] The Trichocoma paradoxa CBS 103.73 v1.0 genome was sequenced with PacBio, assembled with Flye, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.
Summary statistics for the Trichocoma paradoxa CBS 103.73
v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 90.75 |
| Sequencing read coverage depth | 117.49 |
| # of contigs | 14 |
| # of scaffolds | 14 |
| # of scaffolds >= 2Kbp | 13 |
| Scaffold N50 | 4 |
| Scaffold L50 (Mbp) | 9.43 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 15.97, 10.96, 9.78 |
Note: RNA data suffered from contamination, with unmapped RNA reads matching organisms in the Penicillium genus.
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 61776 | 40997 | 66.4% |
| Ests | est.fasta | 98423371 | 81450693 | 82.8% |
| Gene Models | FilteredModels2 | |
| length (bp) of: | average | median |
| gene | 1856 | 1631 |
| transcript | 1663 | 1453 |
| exon | 490 | 283 |
| intron | 83 | 63 |
| description: | ||
| protein length (aa) | 470 | 388 |
| exons per gene | 3.39 | 3 |
| # of gene models | 10928 |
Collaborators
- Joseph Spatafora, Oregon State University, USA
- Alisha Quandt, University of Colorado Boulder, USA
Links
- 1000 Fungal Genomes Project
- JGI PhyloGroup Portals: Fungi Dikarya Ascomycota Pezizomycotina Eurotiomycetes Eurotiales
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.
