Info • Pleodorina starrii NIES-4479

Status

The Pleodorina starrii NIES-4479 genome sequence and gene models were not determined by the Joint Genome Institute (JGI), but were downloaded from NCBI on April 24, 2024. 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 of 2259 external models were excluded based on one of the following classifications: 1) 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 NCBI 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) 136.12
Sequencing read coverage depth
# of contigs 95
# of scaffolds 95
# of scaffolds >= 2Kbp 95
Scaffold N50 12
Scaffold L50 (Mbp) 3.12
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 10.28, 9.03, 8.59


Gene Models FilteredModels1
length (bp) of: average median
gene 5049 3795
transcript 2201 1560
exon 269 148
intron 398 341
description:
protein length (aa) 734 520
exons per gene 8.19 7
# of gene models 13394


Genome Reference(s)

Funding

This project was not sequenced at the JGI.