Status
[May 2023] The genome sequence was not determined by the Joint Genome Institute (JGI). The genome was sequenced with Oxford Nanopore and then assembled with Canu at Dalhousie University. The transcriptome was sequenced with Roche 454 and then assembled with Newbler by JGI. Subsequently, all of the above data were inputted into the JGI Annotation Pipeline, which produced a final structural and functional annotation.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 61.71 |
| Sequencing read coverage depth | |
| # of contigs | 27 |
| # of scaffolds | 27 |
| # of scaffolds >= 2Kbp | 27 |
| Scaffold N50 | 10 |
| Scaffold L50 (Mbp) | 2.65 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 4.05, 3.92, 3.90 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| RNAs | 454 reads | 1509263 | 1504868 | 99.7% |
| RNA contigs | isotigs | 13421 | 13058 | 97.3% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 2153 | 1704 |
| transcript | 1856 | 1491 |
| exon | 468 | 328 |
| intron | 103 | 43 |
| description: | ||
| protein length (aa) | 498 | 376 |
| exons per gene | 3.96 | 3 |
| # of gene models | 13835 |
Links
- JGI Aurantiochytrium limacinum v1.0 portal
- JGI PhyloGroup Portals:Heterokonta Bigyra Labyrinthulomycota
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.
