Info • Tetrabaena socialis NIES-571

Status

The Tetrabaena socialis NIES-571 genome sequence and gene models have not been determined by the JGI, but were downloaded from NCBI on October 31, 2019. All published models are available as ExternalModels. In order to ensure this genome is comparable to those sequenced annotated by the JGI , we applied standard filters to ExternalModels to produce the initial GeneCatalog. A total of 1,842 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 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 this genome.

Genome Assembly
Genome Assembly size (Mbp) 135.78
Sequencing read coverage depth NA
# of contigs 19336
# of scaffolds 5856
# of scaffolds >= 2Kbp 2892
Scaffold N50 263
Scaffold L50 (Mbp) 0.15
# of gaps 13480
% of scaffold length in gaps 27.8%
Three largest Scaffolds (Mbp) 0.70, 0.66, 0.66


Gene Models FilteredModels1
length (bp) of: average median
gene 4308 2765
transcript 1360 994
exon 230 136
intron 601 319
description:
protein length (aa) 427 292
exons per gene 5.92 5
# of gene models 12454


Genome Reference(s)

Funding

This project was not sequenced at the JGI.