Info • Cortinarius abnormis TAS10R v1.0


[October 2022] This 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.

This genome is likely a polymorphic dikaryon, and this is reflected in an assembly and annotation with significant separation of alleles. Some 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) 190.43
Sequencing read coverage depth 78.69x
# of contigs 1409
# of scaffolds 1409
# of scaffolds >= 2Kbp 1407
Scaffold N50 189
Scaffold L50 (Mbp) 0.28
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 1.28, 1.26, 1.23

ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 68966 61713 89.5%
Ests est.fasta 101813334 101063253 99.3%

Gene Models FilteredModels1
length (bp) of: average median
gene 1843 1498
transcript 1459 1173
exon 233 145
intron 75 58
protein length (aa) 437 333
exons per gene 6.26 5
# of gene models 17498


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.