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Genome Information for Phocoena sinus
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The vaquita is the smallest porpoise, endemic to the upper Gulf of California, Mexico. The species is critically endangered, with fewer than 30 individuals estimated to remain in 2017when this sample was collected, in now less than 16 when the genome was completed in 2019. The sample was collected during an attempted capture to begin a captive breeding program, resulting in death of the adult female V02F. Tissue samples were collected during necropsy, and cells were cultured at the Institute for Conservation Research, San Diego Zoo. A portion of the cells have been used to generate a chromosomal-level reference assembly as part of the G10K-VGP Project.
| Accession | PRJNA560233 |
| Type | Umbrella project |
| Organism | Phocoena sinus[Taxonomy ID: 42100] Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Whippomorpha; Cetacea; Odontoceti; Phocoenidae; Phocoena; Phocoena sinus |
| Submission | Registration date: 14-Aug-2019
Vertebrate Genomes Project |
| Relevance | Model Organism |
Project Data:
| Resource Name | Number
of Links |
|---|
| Sequence data |
| Nucleotide (total) | 60217 |
| WGS master | 2 |
| Transcript | 60106 |
| SRA Experiments | 37 |
| Protein Sequences | 52282 |
| Other datasets |
| BioSample | 1 |
| Assembly | 2 |
Phocoena sinus encompasses the following 4 sub-projects:
| Project Type | Number of Projects |
Genome sequencingHighest level of assembly : Chromosomes Scaffolds SRA or Trace Total |
2
1
1
4
|
BioProject
accession | Assembly
level | Name | Title |
|---|
| PRJNA557831 | Chromosomes | Phocoena sinus | Phocoena sinus (Vaquita) genome, mPhoSin1, primary haplotype (Vertebrate Genomes Project) | | PRJNA557832 | Scaffolds | Phocoena sinus | Phocoena sinus (Vaquita) genome, mPhoSin1, alternate haplotype (Vertebrate Genomes Project) | | PRJNA606521 | Chromosomes | Phocoena sinus | Phocoena sinus isolate:mPhoSin1 RefSeq Genome sequencing and assembly (NCBI) | | PRJNA1008625 | SRA or Trace | Phocoena sinus (Vaquita) genome, mPhoSin1, sequence data | Phocoena sinus (Vaquita) genome, mPhoSin1, sequence data (G10K) |
|