| Analysis Name | Solanum chacoense M6 v5.0 Assembly & Annotation |
| Sequencing technology | - |
| Assembly method | - |
| Release Date | 2022-10-04 |
No publication. Downloaded from Potato Genomics Resource. The Buell Lab at the University of Georgia is pleased to make available an updated long-read chromosome-scale genome assembly and genome annotation (v5.0) for Solanum chacoense M6.
Assembly statistics
| Genome size | 85,473,275 bp |
| Number of chromosomes | 12 |
| Number of scaffolds | 533 |
| Scaffold N50 | 53,122,106 bp |
| Scaffold L50 | 5 |
| Assembly level | Chromosome |
The Solanum chacoense M6 v5.0 Assembly file is available in FASTA format.
Downloads
| Chromosomes (FASTA file) | M6_v5.0.asm.fasta.gz |
The Solanum chacoense M6 v5.0 genome gene prediction files are available in GFF3 and FASTA format.
Downloads
| Genes (GFF3 file) | M6_v5.0.gene_models.hc.gff3.gz |
| CDS sequences (FASTA file) | M6_v5.0.gene_models.hc.cds.fa.gz |
| Protein sequences (FASTA file) | M6_v5.0.gene_models.hc.pep.fa.gz |
Functional annotation for the Solanum chacoense M6 v5.0 is available for download below. The proteins were analyzed using InterProScan to assign InterPro domains(Pfam).
Downloads
| Domain from InterProScan | Solanum_chacoense_M6_v5.0.Pfam.tsv.gz |
Summary
| Query | Chr | Size(bp) | Coordinates | BLASTn Hit | BLASTn %ID | Domain |
| SLF15 | chr01 | 85473275 | 4424588-4423329 | Solanum tuberosum DM8.1, SLF15 | 97.7 | F-box domain |
| SLF16Ψ | chr01 | 85473275 | 6281369-6280189 | Solanum tuberosum DM8.1, SLF16 | 97.7 | - |
| SLF22Ψ | chr01 | 85473275 | 32310143-32309005 | Solanum tuberosum DM8.1, SLF22 | 98.6 | - |
| S-RNase | chr01 | 85473275 | 33789818-33789585,33789504-33789094 | Solanum tuberosum MZ561405.1, SRNase-S2 | 98.9 | Ribonuclease T2 family |
| SLF1 | chr01 | 85473275 | 36027022-36025847 | Solanum peruvianum KJ814846.1, SLF1 | 91.2 | F-box domain |
| SLF17 | chr01 | 85473275 | 36081530-36080348 | Solanum tuberosum DM8.1, SLF17 | 96.4 | F-box domain |
| SLF5 | chr01 | 85473275 | 37587911-37586727 | Solanum tuberosum DM8.1, SLF5 | 98 | F-box domain |
| SLF12 | chr01 | 85473275 | 37589008-37590174 | Solanum tuberosum DM8.1, SLF12 | 98.2 | F-box domain |
| SLF4 | chr01 | 85473275 | 37685759-37684593 | Solanum pimpinellifolium KJ814871.1, SLF4 | 95.5 | F-box domain |
| SLF5-2 | chr01 | 85473275 | 37761564-37760395 | Solanum tuberosum DM8.1, SLF5-2 | 98.1 | F-box domain |
| SLF7 | chr01 | 85473275 | 37825781-37824612 | Solanum tuberosum DM8.1, SLF7 | 97.7 | F-box domain |
| SLF6Ψ | chr01 | 85473275 | 37846799-37845657 | Solanum tuberosum DM8.1, SLF6 | 91.9 | - |
| SLF20 | chr01 | 85473275 | 37895751-37894585 | Solanum tuberosum DM8.1, SLF20 | 99.3 | F-box domain |
| SLF21 | chr01 | 85473275 | 38313577-38312357 | Solanum tuberosum DM8.1, SLF21 | 99 | F-box domain |
| SLF9 | chr01 | 85473275 | 39912838-39911696 | Solanum tuberosum DM8.1, SLF9 | 98.4 | F-box domain |
| SLF10Ψ | chr01 | 85473275 | 40939343-40938138 | Solanum chilense KJ814888.1, SLF10 | 92.3 | - |
| SLF11 | chr01 | 85473275 | 41392016-41393164 | Solanum tuberosum DM8.1, SLF11 | 94.1 | F-box domain |
| SLF6-2 | chr01 | 85473275 | 42843872-42842730 | Solanum tuberosum DM8.1, SLF6-2 | 97.7 | F-box domain |
| SLF13 | chr01 | 85473275 | 43181167-43179965 | Solanum tuberosum DM8.1, SLF13 | 98.9 | F-box domain |
| SLF18 | chr01 | 85473275 | 56585403-56586518 | Solanum tuberosum DM8.1, SLF18 | 97.9 | F-box domain |
| SLF19 | chr01 | 85473275 | 56608242-56607130 | Solanum tuberosum DM8.1, SLF19 | 95.2 | F-box domain |
Nucleotide
Protein