| Analysis Name | Solanum lycopersicum 'LA1090 (cultivar)' ASM2575999v1 Assembly & Annotation |
| Sequencing technology | Oxford Nanopore PromethION; Illumina |
| Assembly method | NECAT v. 0.0.1; NextPolish v. 1.4.0; RagTag v. 2.0.1 |
| Release Date | 2022-10-20 |
No publication. NCBI BioProject PRJNA865891. Twenty-one genome assemblies of wild and cultivated tomatoes.
Assembly statistics
| Genome size | 792.1 Mb |
| Number of chromosomes | 12 |
| Number of scaffolds | 489 |
| Scaffold N50 | 65.2 Mb |
| Scaffold L50 | 6 |
| Number of contigs | 721 |
| Contig N50 | 7.5 Mb |
| Contig L50 | 34 |
| Assembly level | Chromosome |
The Solanum lycopersicum 'LA1090 (cultivar)' ASM2575999v1 Assembly file is available in FASTA format.
Downloads
| Chromosomes (FASTA file) | GCA_025759995.1_ASM2575999v1_genomic.fna.gz |
The Solanum lycopersicum 'LA1090 (cultivar)' ASM2575999v1 genome gene prediction files are not available.
Downloads
| Genes (GFF3 file) | - |
| CDS sequences (FASTA file) | - |
| Protein sequences (FASTA file) | - |
Functional annotation for the Solanum lycopersicum 'LA1090 (cultivar)' ASM2575999v1 is not available.
Downloads
| Domain from InterProScan | - |
Summary
| Query | Chr | Size(bp) | Coordinates | BLASTn Hit | BLASTn %ID | Domain |
| SLF15 | CM047249.1 | 90765275 | 2178547-2177288 | SL2.31ch01:2198500-2196501_SLF15 | 100 | F-box domain |
| SLF16 | CM047249.1 | 90765275 | 2699360-2698179 | SL2.31ch01:2723400-2721301_SLF16 | 100 | F-box domain |
| SLF17Ψ | CM047249.1 | 90765275 | 41392674-41391589 | SL2.31ch01:40853100-40851001_SLF17Ψ | 99.9 | - |
| SLF1 | CM047249.1 | 90765275 | 44290610-44291779 | NM_001301439.2, SLF1 | 99.9 | F-box domain |
| S-RNase | CM047249.1 | 90765275 | 45099582-4509934345099245-45098820 | XM_004229015.1,Ribonuclease S-3 | 100 | Ribonuclease T2 family |
| SLF2Ψ | CM047249.1 | 90765275 | 45975566-45974385 | KJ814870.1, SLF2 | 100 | - |
| SLF12Ψ | CM047249.1 | 90765275 | 46032099-46033230 | SL2.31ch01:45516501-45518600_SLF12Ψ | 100 | - |
| SLF4Ψ | CM047249.1 | 90765275 | 46099317-46098151 | KJ814943.1, SLF4 | 100 | - |
| SLF5Ψ | CM047249.1 | 90765275 | 46179878-46178710 | KJ814872.1, SLF5 | 100 | - |
| SLF6Ψ | CM047249.1 | 90765275 | 46197374-46196229 | KJ814944.1, SLF6 | 100 | - |
| SLF8Ψ | CM047249.1 | 90765275 | 46746420-46745252 | SL2.31ch01:46243000-46240701_SLF8Ψ | 99.9 | - |
| SLF7Ψ | CM047249.1 | 90765275 | 46771193-46770096 | SL2.31ch01:46267800-46265701_SLF7Ψ | 100 | - |
| SLF9 | CM047249.1 | 90765275 | 48938061-48936997 | NM_001329461.2, SLF9 | 100 | F-box domain |
| SLF10Ψ | CM047249.1 | 90765275 | 49383117-49384348 | KJ814899.1, SLF10 | 100 | - |
| SLF11 | CM047249.1 | 90765275 | 51333403-51334575 | KJ814877.1, SLF11 | 100 | F-box associated |
| SLF12 | CM047249.1 | 90765275 | 53091598-53090435 | NM_001301441.1, SLF12 | 100 | F-box associated |
| SLF13 | CM047249.1 | 90765275 | 53936500-53935307 | NM_001301435.1, SLF13 | 100 | F-box associated |
| SLF14Ψ | CM047249.1 | 90765275 | 56853015-56851845 | KJ814903.1, SLF14 | 100 | - |
| SLF18 | CM047249.1 | 90765275 | 67984580-67985695 | SL2.31ch01:67739501-67741500_SLF18 | 100 | F-box domain |
| SLF19 | CM047249.1 | 90765275 | 68003605-68002496 | SL2.31ch01:67757501-67759600_SLF19 | 100 | F-box domain |
Nucleotide
Protein