Status
(August 2013) The genome of Atractiella rhizophila was sequenced using Illumina technology and assembled using AllPathsLG version R44849 (Gnerre et al., 2010).
| Genome Assembly | |
| Genome Assembly size (Mbp) | 51.47 |
| Sequencing read coverage depth | 66.7x |
| # of contigs | 3076 |
| # of scaffolds | 1998 |
| # of scaffolds >= 2Kbp | 1618 |
| Scaffold N50 | 220 |
| Scaffold L50 (Mbp) | 0.07 |
| # of gaps | 1078 |
| % of scaffold length in gaps | 3.3% |
| Three largest Scaffolds (Mbp) | 0.32, 0.31, 0.30 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | RNNotator_assembled_Illumina_ESTs | 58651 | 52544 | 89.6% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1584 | 1309 |
| transcript | 1220 | 1011 |
| exon | 230 | 143 |
| intron | 87 | 56 |
| description: | ||
| protein length (aa) | 352 | 284 |
| exons per gene | 5.30 | 4 |
| # of gene models | 17606 |
Collaborators
- Francis Martin, INRA Nancy, France
- Rytas Vilgalys, Duke University, USA
- Gregory Bonito, Duke University, USA
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.
