| Analysis Name | Solanum pimpinellifolium 'LA1589 (cultivar)' SDAU_Spim_LA1589_1.0 Assembly & Annotation |
| Sequencing technology | PacBio Sequel |
| Assembly method | Canu v. 1.8; HERA v. 1.0 |
| Release Date | 2023-12-27 |
No publication. NCBI BioProject PRJNA1037188. Solanum pimpinellifolium cultivar:LA1589 Genome sequencing and assembly.
Assembly statistics
| Genome size | 833.2 Mb |
| Number of chromosomes | 12 |
| Number of scaffolds | 37 |
| Scaffold N50 | 69.7 Mb |
| Scaffold L50 | 6 |
| Number of contigs | 1,040 |
| Contig N50 | 28.4 Mb |
| Contig L50 | 11 |
| Assembly level | Chromosome |
The Solanum pimpinellifolium 'LA1589 (cultivar)' SDAU_Spim_LA1589_1.0 assembly file is available in FASTA format.
Downloads
| Chromosomes (FASTA file) | GCA_034621305.1_SDAU_Spim_LA1589_1.0_genomic.fna.gz |
The Solanum pimpinellifolium 'LA1589 (cultivar)' SDAU_Spim_LA1589_1.0 genome gene prediction files are not available.
Downloads
| Genes (GFF3 file) | - |
| CDS sequences (FASTA file) | - |
| Protein sequences (FASTA file) | - |
Functional annotation for the Solanum pimpinellifolium 'LA1589 (cultivar)' SDAU_Spim_LA1589_1.0 is not available.
Downloads
| Domain from InterProScan | - |
Summary
| Query | Chr | Size(bp) | Coordinates | BLASTn Hit | BLASTn %ID | Domain |
| SLF15 | CM067864.1 | 96,767,464 | 2234711-2233452 | Solanum lycopersicum SL2.31, SLF15 | 99.4 | F-box domain |
| SLF16 | CM067864.1 | 96,767,464 | 2803899-2802718 | Solanum lycopersicum SL2.31, SLF16 | 99.7 | F-box domain |
| SLF17 | CM067864.1 | 96,767,464 | 46788999-46787914 | Solanum lycopersicum SL2.31, SLF17 | 98.6 | F-box domain |
| SLF23 | CM067864.1 | 96,767,464 | 50393558-50392401 | Solanum pimpinellifolium KU960927.1, SLF23 | 99.5 | F-box domain |
| SLF21 | CM067864.1 | 96,767,464 | 50701906-50703207 | Solanum habrochaites KU960918.1, SLF21 | 98.0 | F-box domain |
| SLF7Ψ | CM067864.1 | 96,767,464 | 51078884-51080053 | Solanum pimpinellifolium KJ814874.1, SLF7 | 99.8 | - |
| SLF1Ψ | CM067864.1 | 96,767,464 | 51861548-51860382 | Solanum pimpinellifolium KJ814869.1, SLF1 | 99.9 | - |
| SLF9 | CM067864.1 | 96,767,464 | 53862902-53861838 | Solanum lycopersicum NM_001329461.2, SLF9 | 98.9 | F-box domain |
| SLF10Ψ | CM067864.1 | 96,767,464 | 54302745-54303976 | Solanum pimpinellifolium KJ814876.1, SLF10 | 99.9 | - |
| SLF11 | CM067864.1 | 96,767,464 | 56124973-56126145 | Solanum pimpinellifolium KJ814877.1, SLF11 | 100.0 | F-box domain |
| SLF12 | CM067864.1 | 96,767,464 | 57987958-57986795 | Solanum pimpinellifolium KJ814878.1, SLF12 | 99.7 | F-box domain |
| SLF13 | CM067864.1 | 96,767,464 | 58823843-58822641 | Solanum pimpinellifolium KJ814879.1, SLF13 | 100.0 | F-box domain |
| SLF14Ψ | CM067864.1 | 96,767,464 | 62551614-62550449 | Solanum lycopersicum KJ814903.1, SLF14 | 99.5 | - |
| SLF18 | CM067864.1 | 96,767,464 | 73745450-73746559 | Solanum lycopersicum SL2.31, SLF18 | 99.6 | F-box domain |
| SLF19 | CM067864.1 | 96,767,464 | 73764558-73763449 | Solanum lycopersicum SL2.31, SLF19 | 99.6 | F-box domain |
Nucleotide
Protein