[November 2018] The Issatchenkia orientalis ATCC PTA-6658 genome was sequenced using PacBio and assembled together with Falcon version 1.8.8. The Falcon assembly was run through Falcon unzip version 0.4.0 to further phase the haplotypes in the assembly. Mitochondrial genome was assembled separately and is available in the downloads section.
This Issatchenkia orientalis assembly is likely partially diploid, and this is reflected in an assembly and annotation with significant separation of alleles. 128 of the 135 scaffolds are very similar to larger scaffolds and are predicted to constitute an alternate or secondary haplotype. To represent these primary and secondary haplotypes in the Portal, we have created 'primary alleles' and 'secondary alleles' gene model tracks, comprising the models found on each haplotype. The goal of the GeneCatalog (GC) is to produce a non-redundant set of models which captures the full functional repertoire of the genome, and so the few secondary alleles that are unique were included in the GC, while all others were not.