Info • Roridomyces roridus 9284 v1.0


[February 2019] The Roridomyces rorida genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation Pipeline. The transcriptome was sequenced with Illumina and assembled with Trinity. The mitochondrial genome was assembled separately and is available on the Download page.

The source culture is likely a polymorphic dikaryon, and this is reflected in an assembly and annotation with significant separation of alleles. Many of the smaller 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 Roridomyces roridus 9284 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 91.12
Sequencing read coverage depth 98.59x
# of contigs 543
# of scaffolds 543
# of scaffolds >= 2Kbp 539
Scaffold N50 19
Scaffold L50 (Mbp) 1.22
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 4.57, 4.03, 3.68

ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 64323 61530 95.7%
Ests est.fasta 93964081 93110098 99.1%

Gene Models FilteredModels1
length (bp) of: average median
gene 1636 1427
transcript 1336 1170
exon 235 148
intron 66 52
protein length (aa) 399 339
exons per gene 5.70 4
# of gene models 26381


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.