| Analysis Name | Solanum commersonii 'LZ3.2 (Isolate)' ASM1825827v1 Assembly & Annotation |
| Sequencing technology | Oxford Nanopore GridION; Illumina |
| Assembly method | Canu v. 2.0 |
| Release Date | 2021-05-04 |
No publication. NCBI BioProject PRJNA655804. Solanum commersonii Genome sequencing and assembly.
Assembly statistics
| Genome size | 731.6 Mb |
| Number of chromosomes | 12 |
| Number of scaffolds | 489 |
| Scaffold N50 | 58.9 Mb |
| Scaffold L50 | 6 |
| Number of contigs | 2,529 |
| Contig N50 | 649.8 kb |
| Contig L50 | 317 |
| Assembly level | Chromosome |
The Solanum commersonii 'LZ3.2 (Isolate)' ASM1825827v1 Assembly file is available in FASTA format.
Downloads
| Chromosomes (FASTA file) | GCA_018258275.1_ASM1825827v1_genomic.fna.gz |
The Solanum commersonii 'LZ3.2 (Isolate)' ASM1825827v1 genome gene prediction files are available in GFF3 and FASTA format.
Downloads
| Genes (GFF3 file) | GCA_018258275.1_ASM1825827v1_genomic.gff.gz |
| CDS sequences (FASTA file) | GCA_018258275.1_ASM1825827v1_cds_from_genomic.fna.gz |
| Protein sequences (FASTA file) | GCA_018258275.1_ASM1825827v1_protein.faa.gz |
Functional annotation for the Solanum commersonii 'LZ3.2 (Isolate)' ASM1825827v1 is available for download below. The proteins were analyzed using InterProScan to assign InterPro domains(Pfam).
Downloads
| Domain from InterProScan | Solanum_commersonii_LZ32_ASM1825827v1.Pfam.tsv.gz |
Summary
| Query | Chr | Size(bp) | Coordinates | BLASTn Hit | BLASTn %ID | Domain |
| SLF15 | Chr1 | 68122535 | 3996782-3995523 | Solanum tuberosum DM8.1, SLF15 | 97.5 | F-box domain |
| SLF16Ψ | Chr1 | 68122535 | 5556179-5554999 | Solanum tuberosum DM8.1, SLF16 | 97.6 | - |
| SLF17 | Chr1 | 68122535 | 15224567-15223386 | Solanum tuberosum DM8.1, SLF17 | 97.6 | F-box domain |
| SLF17-2 | Chr1 | 68122535 | 33750855-33749674 | Solanum tuberosum DM8.1, SLF17 | 97.1 | F-box domain |
| SLF23 | Chr1 | 68122535 | 33801263-33800131 | Solanum neorickii MG266239.1, SLF23 | 94.8 | F-box domain |
| S-RNase | Chr1 | 68122535 | 34500418-34500645,34500759-34501187 | Solanum tuberosum MZ561417.1, SRNase-S14 | 98.6 | Ribonuclease T2 family |
| SLF6 | Chr1 | 68122535 | 34778438-34777293 | Solanum lycopersicoides KU987626.1, SLF6 | 96 | F-box domain |
| SLF12 | Chr1 | 68122535 | 35796604-35797770 | Solanum tuberosum DM8.1, SLF12 | 97.5 | F-box domain |
| SLF5 | Chr1 | 68122535 | 35961217-35960048 | Solanum tuberosum DM8.1, SLF5-2 | 96.6 | F-box domain |
| SLF5-2 | Chr1 | 68122535 | 36419596-36420774 | Solanum tuberosum DM8.1, SLF5 | 92.7 | F-box domain |
| SLF22 | Chr1 | 68122535 | 42716179-42715028 | Solanum tuberosum DM8.1, SLF22-2 | 96.4 | F-box domain |
| SLF21 | Chr1 | 68122535 | 46796119-46797339 | Solanum tuberosum DM8.1, SLF21 | 98.5 | F-box domain |
| SLF6-2Ψ | Chr1 | 68122535 | 47448227-47447082 | Solanum tuberosum DM8.1, SLF6 | 92.3 | - |
| SLF20 | Chr1 | 68122535 | 47517507-47516341 | Solanum tuberosum DM8.1, SLF20 | 98.6 | F-box domain |
| SLF20-2 | Chr1 | 68122535 | 47611415-47612581 | Solanum tuberosum DM8.1, SLF20 | 99.2 | F-box domain |
| SLF6-3Ψ | Chr1 | 68122535 | 47638202-47639345 | Solanum tuberosum DM8.1, SLF6 | 91.9 | - |
| SLF7 | Chr1 | 68122535 | 47662821-47663990 | Solanum tuberosum DM8.1, SLF7 | 97.9 | F-box domain |
| SLF5-3 | Chr1 | 68122535 | 47700781-47701950 | Solanum tuberosum DM8.1, SLF5-2 | 98.3 | F-box domain |
| SLF9 | Chr1 | 68122535 | 48649493-48650635 | Solanum tuberosum DM8.1, SLF9 | 98.3 | F-box domain |
| SLF11Ψ | Chr1 | 68122535 | 50659568-50660739 | Solanum tuberosum DM8.1, SLF11 | 93.7 | - |
| SLF3Ψ | Chr1 | 68122535 | 52429589-52430739 | Solanum pennellii BK009230.1, SLF3 | 91.6 | - |
| SLF13 | Chr1 | 68122535 | 52859611-52858409 | Solanum tuberosum DM8.1, SLF13 | 98.9 | F-box domain |
Nucleotide
Protein