Status
The Phycomyces blakesleeanus UBC1 genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section. As UBC1 is very closely related to NRRL 1555 (Phybl2), when predicted gene models were nearly identical to those from NRRL 1555, manual curations were carried over to UBC1 models to maximize details on gene function. A track of models from NRRL 1555 and their locations in UBC1 are also available on the genome browser.
Summary statistics for the Phycomyces blakesleeanus UBC1
v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 41.02 |
| Sequencing read coverage depth | 273.37x |
| # of contigs | 477 |
| # of scaffolds | 477 |
| # of scaffolds >= 2Kbp | 437 |
| Scaffold N50 | 56 |
| Scaffold L50 (Mbp) | 0.23 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 1.01, 0.76, 0.65 |
Unmapped reads and zero accuracy contigs hit Phycomyces
blakesleeanus and fungal ribosomal genes in the nt db.
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 73459 | 52752 | 71.8% |
| Ests | est.fasta | 79900395 | 75632367 | 94.7% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1874 | 1602 |
| transcript | 1435 | 1224 |
| exon | 296 | 174 |
| intron | 116 | 90 |
| description: | ||
| protein length (aa) | 406 | 329 |
| exons per gene | 4.85 | 4 |
| # of gene models | 11981 |
Collaborators
- Luis Corrochano, University of Seville, Spain
Links
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.
