Info • Astrephomene gubernaculifera NIES-4017


The Astrephomene gubernaculifera NIES-4017 genome assembly and gene models have not been determined by the JGI, but were downloaded from NCBI (assembly GCA_021605115.1) on October 25, 2022. In order to ensure this genome is comparable to those sequenced by the JGI, we applied filters to remove if present: 1) transposable elements, 2) pseudogenes, 3) alternative transcripts and overlapping models, 4) alleles on secondary scaffolds and 5) unsupported short models. This resulted in the removal of 646 models and the generation of the FilteredModels1 (GeneCatalog) gene track. All published models are available in the ExternalModels track. 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. The mitochondrial genome assembly from NCBI is available in the downloads section.

Genome Assembly
Genome Assembly size (Mbp) 103.83
Sequencing read coverage depth 380x
# of contigs 206
# of scaffolds 206
# of scaffolds >= 2Kbp 206
Scaffold N50 17
Scaffold L50 (Mbp) 1.51
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 11.13, 4.98, 3.74

Gene Models FilteredModels1
length (bp) of: average median
gene 4218 3222
transcript 2500 1895
exon 336 162
intron 269 235
protein length (aa) 576 403
exons per gene 7.43 6
# of gene models 13067

Genome Reference(s)


This project was not sequenced at the JGI.