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Info • Rhodosporidium toruloides APA 2687 v1.0
Please note that this organism is for archival use only. Please see the current Rhodosporidium toruloides IFO0880 v4.0 site for the latest data and information.

Status

[June 2016] The Rhodosporidium toruloides APA 2687 genome was sequenced with Illumina, assembled with AllPathsLG, and annotated with the JGI Annotation pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.

Summary statistics for the Rhodosporidium toruloides APA 2687 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 20.29
Sequencing read coverage depth 129.2x
# of contigs 172
# of scaffolds 163
# of scaffolds >= 2Kbp 142
Scaffold N50 18
Scaffold L50 (Mbp) 0.38
# of gaps 9
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 0.99, 0.87, 0.70


ESTs Data set # sequences total # mapped to genome % mapped to genome
Ests est.fasta 257698825 250064934 97.0%
Ests Trinity_assembled_Illumina_ESTs 31376 29855 95.2%


Gene Models FilteredModels1
length (bp) of: average median
gene 2147 1798
transcript 1739 1441
exon 282 171
intron 81 64
description:
protein length (aa) 516 412
exons per gene 6.17 5
# of gene models 8235


Collaborators

John Gladden, Joint Bioenergy Institute (JBEI)

Genome Reference(s)

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.