Info • Apodus sp. PSN 540 v1.0

Status

[April 2023] The Apodus sp. PSN 540 v1.0 genome was sequenced with Illumina, assembled with SPAdes, and annotated with the JGI Annotation Pipeline. The transcriptome was sequenced with Illumina and assembled with Trinity. The mitochondrial genome was assembled separately and is available in the Download tab.

Genome Assembly
Genome Assembly size (Mbp) 55.33
Sequencing read coverage depth 99.41x
# of contigs 1299
# of scaffolds 1278
# of scaffolds >= 2Kbp 1043
Scaffold N50 73
Scaffold L50 (Mbp) 0.23
# of gaps 21
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 1.18, 0.90, 0.88


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 47022 46447 98.8%
Ests est.fasta 235988643 233624931 99.0%


Gene Models FilteredModels1
length (bp) of: average median
gene 1929 1668
transcript 1748 1506
exon 645 400
intron 108 72
description:
protein length (aa) 497 409
exons per gene 2.71 2
# of gene models 14101


Collaborators

Funding

The work conducted by the U.S. Department of Energy Joint Genome Institute, a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231.