Info • Ganoderma leucocontextum Dai12418 v1.0


[June 2021] The Ganoderma leucocontextum Dai12418 v1.0 genome was sequenced with PacBio, assembled with Flye, and annotated with the JGI Annotation Pipeline. 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) 60.34
Sequencing read coverage depth 18.27x
# of contigs 845
# of scaffolds 843
# of scaffolds >= 2Kbp 816
Scaffold N50 66
Scaffold L50 (Mbp) 0.21
# of gaps 2
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 1.72, 1.19, 1.10

ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 72817 69544 95.5%
Ests est.fasta 104899326 100982532 96.3%

Gene Models FilteredModels1
length (bp) of: average median
gene 1846 1615
transcript 1477 1278
exon 262 160
intron 81 61
protein length (aa) 434 357
exons per gene 5.64 4
# of gene models 16952


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.