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Info • Vitrella brassicaformis CCMP3155

Status

The Vitrella brassicaformis CCMP3155 genome sequence and gene models have not been determined by the JGI, but were downloaded from CryptoDB release 45 on October 31, 2019. 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 CryptoDB 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 2,173 models from V. brassicaformis 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) 72.70
Sequencing read coverage depth
# of contigs 4171
# of scaffolds 1064
# of scaffolds >= 2Kbp 981
Scaffold N50 144
Scaffold L50 (Mbp) 0.15
# of gaps 3107
% of scaffold length in gaps 1.3%
Three largest Scaffolds (Mbp) 0.68, 0.67, 0.61


Gene Models FilteredModels1
length (bp) of: average median
gene 2829 2269
transcript 2086 1673
exon 234 125
intron 96 85
description:
protein length (aa) 546 417
exons per gene 8.93 7
# of gene models 21239


Genome Reference(s)

Links

Funding

This project was not sequenced at the JGI.