Status
(Aug 2016) The Scytinostroma sp. KUC9335 genome was sequenced using PacBio RS RnD 1 x 240 bp 7.829 kb. Each fastq file was QC filtered for artifact/process contamination and subsequently assembled together with Falcon version 0.2.2 to produce a main assembly with 597 scaffolds.
The JGI annotation pipeline
identified some 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 Scytinostroma sp. KUC9413 v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 60.64 |
| Sequencing read coverage depth | N/A |
| # of contigs | 597 |
| # of scaffolds | 597 |
| # of scaffolds >= 2Kbp | 591 |
| Scaffold N50 | 50 |
| Scaffold L50 (Mbp) | 0.33 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 2.60, 1.67, 1.15 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | est.fasta | 92423024 | 91346553 | 98.8% |
| Other | JGI_RNA_contigs | 50532 | 48920 | 96.8% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1737 | 1462 |
| transcript | 1424 | 1193 |
| exon | 252 | 155 |
| intron | 69 | 56 |
| description: | ||
| protein length (aa) | 408 | 328 |
| exons per gene | 5.66 | 4 |
| # of gene models | 14908 |
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.
