Info • Nannochloropsis gaditana CCMP1894

Status

The Nannochloropsis gaditana CCMP1894 genome sequence and gene models were not determined by the Joint Genome Institute (JGI), but were downloaded from Figshare on Oct 26, 2022. 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 647 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 maintained by Figshare 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 this genome.

Genome Assembly
Genome Assembly size (Mbp) 30.87
Sequencing read coverage depth 288.0x
# of contigs 88
# of scaffolds 85
# of scaffolds >= 2Kbp 85
Scaffold N50 12
Scaffold L50 (Mbp) 1.14
# of gaps 3
% of scaffold length in gaps 0.1%
Three largest Scaffolds (Mbp) 1.57, 1.54, 1.51


Gene Models FilteredModels1
length (bp) of: average median
gene 2379 1792
transcript 1726 1362
exon 410 142
intron 206 182
description:
protein length (aa) 575 454
exons per gene 4.21 3
# of gene models 8928


Genome Reference(s)

Links

Funding

This project was not sequenced at the JGI.