Status
[Feb 2013] The Dioszegia cryoxerica genome was
sequenced using the Illumina platform and assembled with AllPathsLG
release version R43241 (Gnerre
et al., 2010). SNP count is fairly high at 1/395, which
sometimes indicates that this could be diploid assembly.
The initial annotation 'FilteredModels1' included 1747 potential
gene duplicates due to the possible diploidy of the assembly. These
were removed in 'FilteredModels2'.
A 36 Kb mitochondrial genome was assembled separately and is
available in the download section.
Summary statistics for the Dioszegia cryoxerica v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 39.52 |
| Sequencing read coverage depth | 98.5x |
| # of contigs | 1318 |
| # of scaffolds | 865 |
| # of scaffolds >= 2Kbp | 754 |
| Scaffold N50 | 96 |
| Scaffold L50 (Mbp) | 0.12 |
| # of gaps | 453 |
| % of scaffold length in gaps | 1.3% |
| Three largest Scaffolds (Mbp) | 0.43, 0.38, 0.35 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | RNNotator assembled Illumina ESTs | 66338 | 53389 | 80.5% |
| Gene Models | FilteredModels2 | |
| length (bp) of: | average | median |
| gene | 1670 | 1429 |
| transcript | 1415 | 1185 |
| exon | 264 | 164 |
| intron | 61 | 49 |
| description: | ||
| protein length (aa) | 429 | 354 |
| exons per gene | 5.36 | 4 |
| # of gene models | 15948 |
Collaborators
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.
