Info • Saccharina japonica str. Ja

Status

The Saccharina japonica genome sequence and gene models have not been determined by the JGI, but were downloaded from the Online Resource for Community Annotation of Eukaryotes (ORCAE) web portal on August 1, 2020. Please note that this copy of the genome is not maintained by ORCAE 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 this genome.

Genome Assembly
Genome Assembly size (Mbp) 548.54
Sequencing read coverage depth 178x
# of contigs 29238
# of scaffolds 32
# of scaffolds >= 2Kbp 32
Scaffold N50 6
Scaffold L50 (Mbp) 15.13
# of gaps 29206
% of scaffold length in gaps 1.7%
Three largest Scaffolds (Mbp) 195.30, 19.97, 16.91


Gene Models ExternalModels
length (bp) of: average median
gene 9590 6628
transcript 1664 1257
exon 256 145
intron 1445 925
description:
protein length (aa) 555 419
exons per gene 6.49 5
# of gene models 18732


Genome Reference(s)

Please cite the following publication(s) if you use the data from this genome in your research:

Ye N, Zhang X, Miao M, Fan X, Zheng Y, Xu D, Wang J, Zhou L, Wang D, Gao Y, Wang Y, Shi W, Ji P, Li D, Guan Z, Shao C, Zhuang Z, Gao Z, Qi J, Zhao F
Saccharina genomes provide novel insight into kelp biology.
Nat Commun. 2015 Apr 24;6():6986. doi: 10.1038/ncomms7986

Funding

This project was not sequenced at the JGI.