Info • Bremia lactucae SF5

Status

The Bremia lactucae genome sequence and gene models have not been determined by the JGI, but were downloaded from NCBI on March 07, 2024. 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 1464 models and the generation of the FilteredModels1 (GeneCatalog) gene track. All published models are available in the ExternalModels track. Please note that this copy of the genome is not automatically updated. In order to allow comparative analyses with other 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 the genes.

Genome Assembly
Genome Assembly size (Mbp) 115.94
Sequencing read coverage depth 200.0x
# of contigs 5197
# of scaffolds 220
# of scaffolds >= 2Kbp 195
Scaffold N50 7
Scaffold L50 (Mbp) 5.32
# of gaps 4977
% of scaffold length in gaps 21.5%
Three largest Scaffolds (Mbp) 16.03, 8.47, 7.69


Gene Models FilteredModels1
length (bp) of: average median
gene 1861 1455
transcript 1719 1347
exon 701 330
intron 100 69
description:
protein length (aa) 491 381
exons per gene 2.45 2
# of gene models 8303


Genome Reference(s)

Links

Funding

This project was not sequenced at the JGI.