Info • Volvox africanus NIES-3780

Status

The Volvox africanus NIES-3780 genome sequence and gene models were not determined by the Joint Genome Institute (JGI), but were downloaded from NCBI on March 6, 2023. 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 11,013 of 23,635 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/smaller scaffolds, and 5) short models lacking functional annotation. Please note that this copy of the genome is not maintained by NCBI 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) 129.33
Sequencing read coverage depth 294.0x
# of contigs 448
# of scaffolds 448
# of scaffolds >= 2Kbp 448
Scaffold N50 26
Scaffold L50 (Mbp) 1.36
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 6.70, 5.83, 5.56


Gene Models FilteredModels1
length (bp) of: average median
gene 4769 3642
transcript 1968 1458
exon 245 145
intron 401 334
description:
protein length (aa) 656 486
exons per gene 8.03 7
# of gene models 12622


Collaborators

Genome Reference(s)

Links

Funding

This project was not sequenced at the JGI.