Info • Prymnesium parvum 12B1

Status

The Prymnesium parva 12B1 genome sequence and gene models were not determined by the Joint Genome Institute (JGI), but were downloaded from FigShare (Wisecaver et al., 2023) on 10/9/2023. All published models are available as ExternalModels. In order to ensure this genome is comparable to those sequenced and annotated by the JGI, we applied standard filters to ExternalModels to produce the initial GeneCatalog. A total 2,875 of 24,965 external models were excluded based on one of the following classifications: 1) association with repetitive elements, 2) pseudogenes with internal stop codons, 3) alternative isoforms or overlapping transcript models, 4) alleles on secondary scaffolds, and 5) short models lacking functional annotation. Please note that this copy of the genome is not maintained by the authors and is therefore 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) 93.54
Sequencing read coverage depth NA
# of contigs 225
# of scaffolds 34
# of scaffolds >= 2Kbp 34
Scaffold N50 11
Scaffold L50 (Mbp) 3.20
# of gaps 191
% of scaffold length in gaps 0.2%
Three largest Scaffolds (Mbp) 7.32, 5.43, 5.03


Gene Models FilteredModels1
length (bp) of: average median
gene 2115 1560
transcript 1577 1203
exon 335 184
intron 147 89
description:
protein length (aa) 526 401
exons per gene 4.71 3
# of gene models 22090


Genome Reference(s)

Funding

This project was not sequenced at the JGI.