Info • Seminavis robusta D6

Status

The Seminavis robusta D6 genome sequence and gene models have not been determined by the JGI, but were downloaded from the Online Resource for Community Annotation of Eukaryotes (ORCAE) web portal on August 5, 2020. 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 4,312 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 ORCAE and is therefore not automatically updated. In order to allow comparative analyses with other algal genomes sequenced by JGI, a copy of this genome is incorporated into PhycoCosm. The JGI Annotation Pipeline was used to add functional annotation to this genome. The mitochondrial and chloroplast assemblies were separated from the nuclear assembly FASTA and are available in the downloads section.

Genome Assembly
Genome Assembly size (Mbp) 125.57
# of contigs 4756
# of scaffolds 4752
# of scaffolds >= 2Kbp 4351
Scaffold N50 736
Scaffold L50 (Mbp) 0.05
# of gaps 4
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 0.32, 0.29, 0.28


Gene Models FilteredModels1
length (bp) of: average median
gene 1878 1493
transcript 1766 1416
exon 873 623
intron 112 95
description:
protein length (aa) 502 398
exons per gene 2.02 1
# of gene models 33143


Genome Reference(s)

Funding

This project was not sequenced at the JGI.