| Analysis Name | Solanum candolleanum v1.0 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 a long-read chromosome-scale genome assembly and genome annotation (v1.0) for Solanum candolleanum.
Assembly statistics
| Genome size | 699,864,127 bp |
| Number of chromosomes | 12 |
| Number of scaffolds | 1056 |
| Scaffold N50 | 55,398,039 bp |
| Scaffold L50 | 5 |
| Assembly level | Chromosome |
The Solanum candolleanum v1.0 Assembly file is available in FASTA format.
Downloads
| Chromosomes (FASTA file) | S_candolleanum_v1.0.asm.fasta.gz |
The Solanum candolleanum v1.0 genome gene prediction files are available in GFF3 and FASTA format.
Downloads
| Genes (GFF3 file) | S_candolleanum_v1.0.gene_models.hc.gff3.gz |
| CDS sequences (FASTA file) | S_candolleanum_v1.0.gene_models.hc.cds.fa.gz |
| Protein sequences (FASTA file) | S_candolleanum_v1.0.gene_models.hc.pep.fa.gz |
Functional annotation for the Solanum candolleanum v1.0 is available for download below. The proteins were analyzed using InterProScan to assign InterPro domains(Pfam).
Downloads
| Domain from InterProScan | Solanum_candolleanum_v1.0.Pfam.tsv.gz |
Summary
| Query | Chr | Size(bp) | Coordinates | BLASTn Hit | BLASTn %ID | Domain |
| SLF16Ψ | chr01 | 74769255 | 5224141-5222961 | Solanum tuberosum DM8.1, SLF16 | 99.2 | - |
| SLF23 | chr01 | 74769255 | 24675985-24677142 | Solanum neorickii MG266233.1, SLF23 | 95.4 | F-box domain |
| SLF17Ψ | chr01 | 74769255 | 24788659-24789839 | Solanum tuberosum DM8.1, SLF17 | 97.5 | - |
| S-RNase | chr01 | 74769255 | 26746728-26746970,26747088-26747516 | Solanum tuberosum X62727.1, StS2-RNase | 100 | Ribonuclease T2 family |
| SLF5 | chr01 | 74769255 | 28135016-28133826 | Solanum tuberosum DM8.1, SLF5 | 97.8 | F-box domain |
| SLF5-2 | chr01 | 74769255 | 30295683-30294493 | Solanum tuberosum DM8.1, SLF5 | 96.3 | F-box domain |
| SLF12 | chr01 | 74769255 | 30305719-30306888 | Solanum tuberosum DM8.1, SLF12 | 97.1 | F-box domain |
| SLF23-2 | chr01 | 74769255 | 30352544-30353692 | Solanum lycopersicoides KU960925.1, SLF23 | 94.6 | F-box domain |
| SLF17-2 | chr01 | 74769255 | 30364442-30365623 | Solanum tuberosum DM8.1, SLF17 | 97.4 | F-box domain |
| SLF1Ψ | chr01 | 74769255 | 30432990-30434172 | Solanum pennellii KJ814858.1, SLF1 | 92 | - |
| SLF5-3 | chr01 | 74769255 | 31683709-31682543 | Solanum tuberosum DM8.1, SLF5-2 | 95.4 | F-box domain |
| S-RNase-2 | chr01 | 74769255 | 33313463-33313221,33313106-33312681 | Solanum peruvianum Z26581.1, Sn-Rnase | 92 | Ribonuclease T2 family |
| SLF7Ψ | chr01 | 74769255 | 33497772-33496600 | Solanum tuberosum DM8.1, SLF7 | 96.8 | - |
| SLF20 | chr01 | 74769255 | 33525091-33523925 | Solanum tuberosum DM8.1, SLF20 | 97.5 | F-box domain |
| SLF21 | chr01 | 74769255 | 33900506-33899286 | Solanum tuberosum DM8.1, SLF21 | 99.1 | F-box domain |
| SLF9 | chr01 | 74769255 | 34422626-34421484 | Solanum tuberosum DM8.1, SLF9 | 99.7 | F-box domain |
| SLF11 | chr01 | 74769255 | 35643745-35642576 | Solanum tuberosum DM8.1, SLF11 | 95.5 | F-box domain |
| SLF13 | chr01 | 74769255 | 36496134-36494932 | Solanum tuberosum DM8.1, SLF13 | 99.6 | F-box domain |
| SLF19 | chr01 | 74769255 | 46734248-46733136 | Solanum tuberosum DM8.1, SLF19 | 98.3 | F-box domain |
Nucleotide
Protein