| Analysis Name | Solanum verrucosum '11H23 (Cultivar)' ASM3123040v1 Assembly & Annotation |
| Sequencing technology | PacBio Sequel IIe; Illumina NovaSeq |
| Assembly method | Hifiasm v. 0.15.5-r350; juicer v. 1.6 |
| Release Date | 2023-09-07 |
No publication. NCBI BioProject PRJNA820895. Wild potato species genome sequencing and assembly.
Assembly statistics
| Genome size | 684 Mb |
| Number of chromosomes | 12 |
| Number of scaffolds | 12 |
| Scaffold N50 | 55.6 Mb |
| Scaffold L50 | 6 |
| Number of contigs | 665 |
| Contig N50 | 8.3 Mb |
| Contig L50 | 21 |
| Assembly level | Chromosome |
The Solanum verrucosum '11H23 (Cultivar)' ASM3123040v1 Assembly file is available in FASTA format.
Downloads
| Chromosomes (FASTA file) | GCA_031230405.1_ASM3123040v1_genomic.fna.gz |
The Solanum verrucosum '11H23 (Cultivar)' ASM3123040v1 genome gene prediction files are available in GFF3 and FASTA format.
Downloads
| Genes (GFF3 file) | GCA_031230405.1_ASM3123040v1_genomic.gff.gz |
| CDS sequences (FASTA file) | GCA_031230405.1_ASM3123040v1_cds_from_genomic.fna.gz |
| Protein sequences (FASTA file) | GCA_031230405.1_ASM3123040v1_protein.faa.gz |
Functional annotation for the Solanum verrucosum '11H23 (Cultivar)' ASM3123040v1 is available for download below. The proteins were analyzed using InterProScan to assign InterPro domains(Pfam).
Downloads
| Domain from InterProScan | Solanum_verrucosum_11H23_ASM3123040v1.Pfam.tsv.gz |
Summary
| Query | Chromosome | Size(bp) | Coordinates | BLASTn Hit | BLASTn %ID | Domain |
| SLF15 | CP133612.1 | 84,109,000 | 3969487-3968225 | Solanum tuberosum DM8.1, SLF15 | 97.5 | F-box domain |
| SLF16Ψ | CP133612.1 | 84,109,000 | 5786801-5785621 | Solanum tuberosum DM8.1, SLF16 | 98.2 | - |
| SLF22Ψ | CP133612.1 | 84,109,000 | 34230216-34229099 | Solanum tuberosum DM8.1, SLF22 | 96.8 | - |
| SLF23 | CP133612.1 | 84,109,000 | 35128699-35129856 | Solanum lycopersicoides KU960925.1, SLF23 | 94.6 | F-box domain |
| SLF17 | CP133612.1 | 84,109,000 | 35206274-35207440 | Solanum tuberosum DM8.1, SLF17 | 97.8 | F-box domain |
| SLF12 | CP133612.1 | 84,109,000 | 35268421-35267255 | Solanum tuberosum DM8.1, SLF12 | 97.2 | F-box domain |
| SLF5 | CP133612.1 | 84,109,000 | 35276437-35277627 | Solanum tuberosum DM8.1, SLF5 | 95.7 | F-box domain |
| SLF12-2 | CP133612.1 | 84,109,000 | 37077345-37078511 | Solanum tuberosum DM8.1, SLF12 | 97.1 | F-box domain |
| SLF5-2 | CP133612.1 | 84,109,000 | 37408191-37407025 | Solanum tuberosum DM8.1, SLF5-2 | 98.4 | F-box domain |
| SLF7 | CP133612.1 | 84,109,000 | 37459350-37458181 | Solanum tuberosum DM8.1, SLF7 | 97.5 | F-box domain |
| SLF6Ψ | CP133612.1 | 84,109,000 | 37483495-37482349 | Solanum tuberosum DM8.1, SLF6 | 91.1 | - |
| SLF20 | CP133612.1 | 84,109,000 | 37538945-37537779 | Solanum tuberosum DM8.1, SLF20 | 99.5 | F-box domain |
| SLF21 | CP133612.1 | 84,109,000 | 38138141-38136921 | Solanum tuberosum DM8.1, SLF21 | 98.9 | F-box domain |
| SLF9 | CP133612.1 | 84,109,000 | 39802513-39803655 | Solanum tuberosum DM8.1, SLF9 | 97.6 | F-box domain |
| SLF2 | CP133612.1 | 84,109,000 | 43099985-43098798 | Solanum pennellii BK009231.1, SLF2 | 94.1 | F-box domain |
| SLF13 | CP133612.1 | 84,109,000 | 43100000-43098798 | Solanum tuberosum DM8.1, SLF13 | 99.3 | F-box domain |
| SLF18 | CP133612.1 | 84,109,000 | 55741159-55742274 | Solanum tuberosum DM8.1, SLF18 | 97.9 | F-box domain |
| SLF19 | CP133612.1 | 84,109,000 | 55773001-55771889 | Solanum tuberosum DM8.1, SLF19 | 96.7 | F-box domain |
Nucleotide
Protein