Info • Panellus stipticus LUM v1.0


(Aug 2016) The Panellus stipticus LUM genome was sequenced using PacBio RS Regular (DNA) 1 x 240 bp 8.93 kb. Each fastq file was QC filtered with smrtanalysis and subsequently assembled with Falcon, improved with finisherSC, and polished with Quiver to produce an assembly with 379 scaffolds.

The JGI annotation pipeline identified 7,089 gene models as possible diploid alleles, and excluded them from the filtered model/gene catalog set. These models are shown in the track "secondary_alleles", and are available from the download page.

Summary statistics for the Panellus stipticus LUM v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 57.18
Sequencing read coverage depth 157.6x
# of contigs 379
# of scaffolds 379
# of scaffolds >= 2Kbp 379
Scaffold N50 32
Scaffold L50 (Mbp) 0.39
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 2.19, 2.14, 2.13

ESTs Data set # sequences total # mapped to genome % mapped to genome
Ests est.fasta 168296397 166643121 99.0%
Other JGI_RNA_contigs 66231 64346 97.2%

Gene Models FilteredModels1
length (bp) of: average median
gene 1632 1361
transcript 1316 1101
exon 218 136
intron 65 54
protein length (aa) 387 312
exons per gene 6.05 5
# of gene models 16771


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.