Info • Morchella kakiicolor PhC 280 v3.0


[June 2020] The Morchella kakiicolor PhC 280 v3.0 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.

We identified polymorphic content, 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 repertiore of the genome, and so the few secondary alleles that are unique were included in the GC, while all others were not.

Summary statistics for the Morchella kakiicolor PhC 280 v3.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 68.81
Sequencing read coverage depth 120.71x
# of contigs 277
# of scaffolds 277
# of scaffolds >= 2Kbp 277
Scaffold N50 19
Scaffold L50 (Mbp) 1.10
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 3.23, 2.54, 2.49

ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 63304 58175 91.9%
Ests est.fasta 172746845 170350048 98.6%

Gene Models FilteredModels1
length (bp) of: average median
gene 1802 1549
transcript 1564 1314
exon 428 273
intron 92 67
protein length (aa) 443 353
exons per gene 3.65 3
# of gene models 10759



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.