Info • Gracilaria vermiculophylla HapMaleFtJ-2017

Status

The Gracilaria vermiculophylla HapMaleFtJ-2017 genome sequence and gene models were not determined by the Joint Genome Institute (JGI), but were downloaded from Rhodoexplorer on July 18, 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 721 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 its authors 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) 45.96
Sequencing read coverage depth
# of contigs 3966
# of scaffolds 547
# of scaffolds >= 2Kbp 163
Scaffold N50 6
Scaffold L50 (Mbp) 2.68
# of gaps 3419
% of scaffold length in gaps 0.7%
Three largest Scaffolds (Mbp) 6.04, 5.19, 3.61


Gene Models FilteredModels1
length (bp) of: average median
gene 1572 1179
transcript 1388 1125
exon 1017 804
intron 503 102
description:
protein length (aa) 463 375
exons per gene 1.37 1
# of gene models 6327


Genome Reference(s)

Links

Funding

This project was not sequenced at the JGI.