Info • Hyaloperonospora arabidopsidis Emoy2 v2.0


The Hyaloperonospora arabidopsidis Emoy2 genome sequence and gene models were not determined by the Joint Genome Institute (JGI), but were downloaded from ENSEMBL on Dec 1, 2020. In order to ensure this genome is comparable to those sequenced by the JGI, we applied filters to remove if present: 1) transposable elements, 2) pseudogenes, 3) alternative transcripts and overlapping models, 4) alleles on secondary scaffolds and 5) unsupported short models. This resulted in the removal of 5183 models from H. arabidopsidis and the generation of the FilteredModels3 gene track. All published models are available in the ExternalModels track. Please note that this copy of the genome is not maintained by ENSEMBL and is therefore not automatically updated. In order to allow comparative analyses with other fungal and algal genomes sequenced by the JGI, a copy of this genome is incorporated into PhycoCosm. The JGI Annotation Pipeline was used to add functional annotation to this genome.

Summary statistics for the Hyaloperonospora arabidopsidis Emoy2 release are below.
Genome Assembly
Genome Assembly size (Mbp) 78.90
Sequencing read coverage depth 9.5x
# of contigs 7480
# of scaffolds 3044
# of scaffolds >= 2Kbp 1692
Scaffold N50 70
Scaffold L50 (Mbp) 0.33
# of gaps 4436
% of scaffold length in gaps 10.2%
Three largest Scaffolds (Mbp) 1.23, 1.18, 1.16

Gene Models FilteredModels3
length (bp) of: average median
gene 1404 1143
transcript 1271 993
exon 608 283
intron 124 90
protein length (aa) 424 330
exons per gene 2.09 1
# of gene models 9138

Genome Reference(s)



This project was not sequenced at the JGI.