Status
[January 2017] The Climacocystis borealis CliBor001 genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation pipeline.
The JGI annotation pipeline identified 5,008 gene models as possible diploid alleles, and excluded them from the filtered model/gene catalog set. These models are shown in the track "secondary_alleles", and are available from the download page.
Summary statistics for the Climacocystis borealis v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 51.88 |
| Sequencing read coverage depth | 180.77x |
| # of contigs | 677 |
| # of scaffolds | 677 |
| # of scaffolds >= 2Kbp | 674 |
| Scaffold N50 | 28 |
| Scaffold L50 (Mbp) | 0.45 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 2.35, 1.62, 1.58 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 69770 | 66809 | 95.8% |
| Ests | est.fasta | 139573571 | 137247955 | 98.3% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1786 | 1511 |
| transcript | 1411 | 1185 |
| exon | 221 | 141 |
| intron | 71 | 60 |
| description: | ||
| protein length (aa) | 411 | 334 |
| exons per gene | 6.40 | 5 |
| # of gene models | 13422 |
Collaborators
Håvard Kauserud, University of Oslo
Joseph W. Spatafora, Oregon State University
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.
