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Info • Crustoderma dryinum OMC1663 v1.0

Status

[January 2019] The Crustoderma dryinum OMC1663 genome was sequenced with PacBio, assembled with Falcon (v1.8.8), and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the Download 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 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 Crustoderma dryinum OMC1633 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 72.79
Sequencing read coverage depth 172.39x
# of contigs 370
# of scaffolds 370
# of scaffolds >= 2Kbp 368
Scaffold N50 35
Scaffold L50 (Mbp) 0.55
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 3.92, 2.58, 2.19


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 104546 99470 95.1%
Ests est.fasta 179619531 177965721 99.1%


Gene Models FilteredModels1
length (bp) of: average median
gene 1759 1504
transcript 1450 1235
exon 263 160
intron 71 55
description:
protein length (aa) 419 338
exons per gene 5.51 4
# of gene models 17221


Collaborators

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.