Info • Auxenochlorella protothecoides UTEX 25

Status

The Auxenochlorella protothecoides UTEX 25 genome sequence and gene models have not been determined by the JGI, but were downloaded from the Los Alamos National Laboratory (LANL) Greenhouse portal on October 31, 2019. 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 353 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 LANL 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) 21.22
Sequencing read coverage depth 38.0x
# of contigs 1892
# of scaffolds 217
# of scaffolds >= 2Kbp 93
Scaffold N50 12
Scaffold L50 (Mbp) 0.64
# of gaps 1675
% of scaffold length in gaps 0.8%
Three largest Scaffolds (Mbp) 2.06, 1.24, 0.98


Gene Models FilteredModels1
length (bp) of: average median
gene 2752 1960
transcript 1441 1107
exon 211 150
intron 227 186
description:
protein length (aa) 479 367
exons per gene 6.83 5
# of gene models 5688


Genome Reference(s)

Links

Funding

This project was not sequenced at the JGI.