Info • Cyathus stercoreus NK-82 v1.0


[August 2022] The Cyathus stercoreus NK-82 v1.0 genome was sequenced with PacBio, assembled with Flye, and annotated with the JGI Annotation Pipeline. The mitochondrial genome was assembled separately and is available in the downloads section.

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 repertoire 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) 202.91
Sequencing read coverage depth 53.76x
# of contigs 421
# of scaffolds 421
# of scaffolds >= 2Kbp 419
Scaffold N50 37
Scaffold L50 (Mbp) 1.90
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 6.00, 4.73, 4.61

Gene Models FilteredModels1
length (bp) of: average median
gene 1680 1389
transcript 1277 1050
exon 223 132
intron 87 57
protein length (aa) 426 350
exons per gene 5.73 4
# of gene models 33641


Genome Reference(s)


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.