Info • Volvox reticuliferus NIES-3786

Status

The Volvox reticuliferus NIES-3786 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 8,380 of 21,354 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) 133.96
Sequencing read coverage depth 278.0x
# of contigs 230
# of scaffolds 230
# of scaffolds >= 2Kbp 230
Scaffold N50 23
Scaffold L50 (Mbp) 1.87
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 5.52, 5.34, 4.88


Gene Models FilteredModels1
length (bp) of: average median
gene 4493 3454
transcript 1884 1416
exon 243 145
intron 388 326
description:
protein length (aa) 628 472
exons per gene 7.76 6
# of gene models 12974


Collaborators

Genome Reference(s)

Links

Funding

This project was not sequenced at the JGI.