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Genome Information for Pristis pectinata
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The smalltooth sawfish (Pristis pectinata) is found in shallow tropical and subtropical waters in coastal and estuarine parts of the Atlantic, and is a critically endangered of becoming extinct. This assembly has been produced as part of the G10K-VGP project. Sequencing was conducted with PacBio long reads, Bionano optical maps, and 10X Genomics linked reads at the Rockefeller University Vertebrate Genomes Lab led by Olivier Fedrigo, HiC at Arima Genomics, and Illumina sequencing. Genome assembly was conducted by Olivier Fedrigo and Arang Rhie, using the VGP 1.5 pipeline. The primary haplotype was assembled to chromosomes, whereas the alternate as contigs only. Genome coordination and funding was by Gavin Naylor. The raw data and assembly are currently under a G10K-VGP publication embargo until removed from this description, following the G10K data use policy at the following URL: https://genome10k.soe.ucsc.edu/data-use-policies/
| Accession | PRJNA562240 |
| Type | Umbrella project |
| Organism | Pristis pectinata[Taxonomy ID: 685728] Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Chondrichthyes; Elasmobranchii; Batoidea; Rhinopristiformes; Pristidae; Pristis; Pristis pectinata |
| Submission | Registration date: 26-Aug-2019
Vertebrate Genomes Project |
| Relevance | Model Organism |
Project Data:
| Resource Name | Number
of Links |
|---|
| Sequence data |
| Nucleotide (total) | 40524 |
| WGS master | 2 |
| Transcript | 40257 |
| SRA Experiments | 27 |
| Protein Sequences | 37177 |
| Other datasets |
| BioSample | 1 |
| Assembly | 2 |
This project encompasses the following 4 sub-projects:
| Project Type | Number of Projects |
Genome sequencingHighest level of assembly : Chromosomes Contigs SRA or Trace Total |
2
1
1
4
|
BioProject
accession | Assembly
level | Name | Title |
|---|
| PRJNA562009 | Chromosomes | Pristis pectinata | Pristis pectinata (Smalltooth sawfish) genome, sPriPec2, primary haplotype (Vertebrate Genomes Project) | | PRJNA562010 | Contigs | Pristis pectinata | Pristis pectinata (Smalltooth sawfish) genome, sPriPec2, alternate haplotype (Vertebrate Genomes Project) | | PRJNA898594 | Chromosomes | Pristis pectinata | Pristis pectinata RefSeq Genome sequencing and assembly (NCBI) | | PRJNA1008666 | SRA or Trace | Pristis pectinata (Smalltooth sawfish) genome, sPriPec2, sequence data | Pristis pectinata (Smalltooth sawfish) genome, sPriPec2, sequence data (G10K) |
|