Info • Volvox reticuliferus NIES-3785

Status

The Volvox reticuliferus NIES-3785 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 8,982 out of 22,160 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) 133.07
Sequencing read coverage depth 369.0x
# of contigs 200
# of scaffolds 200
# of scaffolds >= 2Kbp 200
Scaffold N50 24
Scaffold L50 (Mbp) 1.91
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 4.94, 4.89, 4.77


Gene Models FilteredModels1
length (bp) of: average median
gene 4363 3356
transcript 1836 1386
exon 242 145
intron 386 325
description:
protein length (aa) 612 462
exons per gene 7.59 6
# of gene models 13178


Collaborators

Genome Reference(s)

Links

Funding

This project was not sequenced at the JGI.