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Genome Information for Thamnophis elegans
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The western terrestrial garter snake (Thamnophis elegans) is found in western North American, and like many snake has venomous saliva. This assembly has been produced as part of the G10K-VGP and B10K projects. Sequencing was conducted with PacBio long reads, Bionano optical maps, and 10X Genomics libraries at the Rockefeller University Vertebrate Genomes Lab led by Olivier Fedrigo, HiC at Dovetail Genomics, and Illumina sequencing. Genome assembly was conducted by the Olivier Fedrigo and Chai Fungtammasan, and supervised by Arang Rhie, using the VGP 1.5 pipeline. The primary haplotype was assembled to chromosomes, whereas the alternate as contigs only. Coordination and funding of the genome was by Anne Bronikowski. 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 | PRJNA562247 |
| Type | Umbrella project |
| Organism | Thamnophis elegans[Taxonomy ID: 35005] Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Lepidosauria; Squamata; Bifurcata; Unidentata; Episquamata; Toxicofera; Serpentes; Colubroidea; Colubridae; Natricinae; Thamnophis; Thamnophis elegans |
| Submission | Registration date: 26-Aug-2019
Vertebrate Genomes Project |
| Relevance | Model Organism |
Project Data:
| Resource Name | Number
of Links |
|---|
| Sequence data |
| Nucleotide (total) | 33895 |
| WGS master | 2 |
| Transcript | 33492 |
| SRA Experiments | 17 |
| Protein Sequences | 30876 |
| 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 Scaffolds SRA or Trace Total |
2
1
1
4
|
BioProject
accession | Assembly
level | Name | Title |
|---|
| PRJNA561996 | Chromosomes | Thamnophis elegans | Thamnophis elegans (Western terrestrial garter snake) genome, rThaEle1, primary haplotype (Vertebrate Genomes Project) | | PRJNA561997 | Scaffolds | Thamnophis elegans | Thamnophis elegans (Western terrestrial garter snake) genome, rThaEle1, alternate haplotype (Vertebrate Genomes Project) | | PRJNA602516 | Chromosomes | Thamnophis elegans | Thamnophis elegans isolate:rThaEle1 RefSeq Genome sequencing and assembly (NCBI) | | PRJNA1008649 | SRA or Trace | Thamnophis elegans (Western terrestrial garter snake) genome, rThaEle1, sequence data | Thamnophis elegans (Western terrestrial garter snake) genome, rThaEle1, sequence data (G10K) |
|