Status
[October 2018] The Cortinarius aff. campbellae TAS5-PSC4363 genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation Pipeline. The transcriptome was sequenced with Illumina and assembled with Trinity. The mitochondrial genome was assemblied separately and is available on the Download page.
The RNA samples were heavily contaminated by other fungal species, accounting for the low RNA mapping rates.
Summary statistics for the Cortinarius aff.
campbellae TAS5-PSC4363 v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 76.97 |
| Sequencing read coverage depth | 201.52x |
| # of contigs | 1204 |
| # of scaffolds | 1204 |
| # of scaffolds >= 2Kbp | 1178 |
| Scaffold N50 | 81 |
| Scaffold L50 (Mbp) | 0.22 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 1.72, 1.41, 1.19 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 205614 | 54662 | 26.6% |
| Ests | est.fasta | 277073058 | 106519117 | 38.4% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1692 | 1415 |
| transcript | 1351 | 1119 |
| exon | 229 | 142 |
| intron | 71 | 57 |
| description: | ||
| protein length (aa) | 404 | 323 |
| exons per gene | 5.90 | 5 |
| # of gene models | 17407 |
Collaborators
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.
