Info • Cortinarius saniosus 2018PMI107 v2.0


[May 2023] The Cortinarius saniosus 2018PMI107 v2.0 genome was sequenced with PacBio, assembled with Flye, and annotated with the JGI Annotation Pipeline. Due to limited material, the genome assembly and annotation are fragmented. Mitochondrial genome was assembled separately and is available in the Download tab.

The genome is likely a polymorphic dikaryon, and this is reflected in an assembly and annotation with significant separation of alleles. Many of the 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 repertiore of the genome, and so the few secondary alleles that are unique were included in the GC, while all others were not.

Genome Assembly
Genome Assembly size (Mbp) 210.56
Sequencing read coverage depth 45.73x
# of contigs 6569
# of scaffolds 6569
# of scaffolds >= 2Kbp 6525
Scaffold N50 1440
Scaffold L50 (Mbp) 0.04
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 0.27, 0.27, 0.24

ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 80351 71470 88.9%
Ests est.fasta 181295837 180009416 99.3%

Gene Models FilteredModels1
length (bp) of: average median
gene 1649 1308
transcript 1303 1064
exon 237 146
intron 79 58
protein length (aa) 394 307
exons per gene 5.51 4
# of gene models 26370


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.