Info • Cyanophora paradoxa CCMP329

Status

The Cyanophora paradoxa CCMP329 genome assembly and gene models have not been determined by the JGI, but were downloaded from the publication supplemental datashare (cyanophora.rutgers.edu) on September 25, 2019. All published models are available as ExternalModels. In order to ensure this genome is comparable to those sequenced and annotated by the JGI, we applied standard filters to ExternalModels to produce the initial GeneCatalog. A total of 3,983 external models were excluded based on one of the following classifications: 1) association with repetitive elements, 2) pseudogenes with internal stop codons, 3) alternative isoforms or overlapping transcript models, 4) alleles on secondary scaffolds, and 5) short models lacking functional annotation. Please note that this copy of the genome is not maintained by Rutgers University 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) 98.35
Sequencing read coverage depth 315x
# of contigs 704
# of scaffolds 704
# of scaffolds >= 2Kbp 704
Scaffold N50 132
Scaffold L50 (Mbp) 0.21
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 1.23, 0.90, 0.88


Gene Models FilteredModels1
length (bp) of: average median
gene 2456 1859
transcript 1606 1182
exon 147 93
intron 87 68
description:
protein length (aa) 535 394
exons per gene 10.96 8
# of gene models 21535


Genome Reference(s)

Links

Funding

This project was not sequenced at the JGI.