Status
The haploid genome sequence and gene models of Chloropicon primus CCMP1205 were downloaded from NCBI 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.
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 312 models from C. primus and generation of the FilteredModels1 gene track. All published models are available in the ExternalModels track. JGI tools were used to automatically annotate predicted proteins. Please note that this copy of the genome is not maintained by the JGI and is therefore not automatically updated.
Genome Assembly | |
Genome Assembly size (Mbp) | 17.40 |
Sequencing read coverage depth | 391.0x |
# of contigs | 20 |
# of scaffolds | 20 |
# of scaffolds >= 2Kbp | 20 |
Scaffold N50 | 6 |
Scaffold L50 (Mbp) | 1.09 |
# of gaps | 0 |
% of scaffold length in gaps | 0.0% |
Three largest Scaffolds (Mbp) | 1.88, 1.76, 1.48 |
Gene Models | FilteredModels1 | |
length (bp) of: | average | median |
gene | 1568 | 1266 |
transcript | 1488 | 1188 |
exon | 975 | 645 |
intron | 154 | 124 |
description: | ||
protein length (aa) | 496 | 396 |
exons per gene | 1.53 | 1 |
# of gene models | 8327 |
Collaborators
- Claude Lemieux, Université Laval, Québec City, Canada
Genome Reference(s)
Lemieux C, Turmel M, Otis C, Pombert JF
A streamlined and predominantly diploid genome in the tiny marine green alga Chloropicon primus.
Nat Commun. 2019 Sep 6;10(1):4061. doi: 10.1038/s41467-019-12014-x
Links
- JGI PhyloGroup Portals: Algae Archaeplastida Viridiplantae Chlorophyta