Info • Pisolithus marmoratus 721 v1.0

Status

[January 2023] The Pisolithus marmoratus 721 v1.0 genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation Pipeline. 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) 77.72
Sequencing read coverage depth 335.52x
# of contigs 1541
# of scaffolds 1541
# of scaffolds >= 2Kbp 1532
Scaffold N50 146
Scaffold L50 (Mbp) 0.12
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 1.60, 0.84, 0.62


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 152738 124016 81.2%
Ests est.fasta 267496351 258443537 96.6%


Gene Models FilteredModels1
length (bp) of: average median
gene 1694 1390
transcript 1335 1069
exon 220 141
intron 73 56
description:
protein length (aa) 389 302
exons per gene 6.07 5
# of gene models 17850


Funding

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.