Info • Pedinophyceae sp. YPF-701


The Pedinophyceae sp. YPF-701 genome assembly and gene models have not been determined by the JGI, but were downloaded from the NCBI on September 16, 2022. In order to allow comparative analyses with other algal genomes sequenced by the JGI, a copy of this genome is incorporated into PhycoCosm. Please note that this copy of the genome is not maintained by NCBI and is therefore not automatically updated.

We applied filters to remove if present: 1) transposable elements, 2) pseudogenes, 3) alternative transcripts and overlapping models, and 4) unsupported short models. This resulted in removal of 181 models from Pedinophyceae sp. YPF-701 and generation of the FilteredModels1 gene track. All published models are available in the ExternalModels track. The JGI Annotation Pipeline was used to add functional annotation to this genome.

Genome Assembly
Genome Assembly size (Mbp) 27.90
# of contigs 32
# of scaffolds 32
# of scaffolds >= 2Kbp 32
Scaffold N50 8
Scaffold L50 (Mbp) 1.23
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 2.74, 2.20, 2.05

Gene Models FilteredModels1
length (bp) of: average median
gene 2295 1867
transcript 1702 1296
exon 417 223
intron 194 151
protein length (aa) 567 432
exons per gene 4.08 4
# of gene models 7759

Genome Reference(s)


This project was not sequenced at the JGI.