Status
The Enallax costatus CCAP 276/31 v1.0 genome was sequenced with PacBio, assembled with MECAT, and annotated using the JGI Annotation Pipeline. In contrast to the v1.0 portal, this annotation has been improved through the addition of Iso-Seq data to the original RNAseq transcriptome.
Note that scaffold_55 was determined to be likely mitochondrial contamination of the nuclear assembly. 30 models were removed from FilteredModels3 and the GeneCatalog to reflect this.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 127.56 |
| Sequencing read coverage depth | 263.39x |
| # of contigs | 116 |
| # of scaffolds | 116 |
| # of scaffolds >= 2Kbp | 116 |
| Scaffold N50 | 12 |
| Scaffold L50 (Mbp) | 3.99 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 10.91, 7.39, 5.75 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | est.fasta | 595927738 | 590007513 | 99.0% |
| Other | IsoSeq_reads | 265724 | 259893 | 97.8% |
| Other | JGI_RNA_contigs | 145265 | 122276 | 84.2% |
| Gene Models | FilteredModels3 | |
| length (bp) of: | average | median |
| gene | 4394 | 3597 |
| transcript | 2307 | 1984 |
| exon | 399 | 200 |
| intron | 438 | 327 |
| description: | ||
| protein length (aa) | 454 | 358 |
| exons per gene | 5.78 | 5 |
| # of gene models | 19308 |
Collaborators
- Elena L. Peredo, Marine Biological Laboratory, Woods Hole, MA, USA
- Zoe G. Cardon, Marine Biological Laboratory, Woods Hole, MA, USA
Links
- JGI Algae EcoGroup Portal
- JGI PhyloGroup Portals: Viridiplantae Chlorophyta Chlorophyceae Sphaeropleales Scenedesmaceae
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.
