Table 1 Summary statistics for the JX1 and SL1 assembly and their genomic annotations
From: Lost genome segments associate with trait diversity during rice domestication
Categories | Genomic feature | JX1 | SL1 |
|---|---|---|---|
Genome | Estimated size (Mb) | 424.9 | 412.7 |
GC content (%) | 43% | 44% | |
Length of assembly (Mb) | 409.3 | 396.4 | |
Contig N50 (bp) | 5,825,388 | 2,665,012 | |
Contig N90 (bp) | 1,095,364 | 669,592 | |
Largest contig (bp) | 15,735,557 | 19,511,849 | |
Sequences anchored to chromosomes (%) | 98.7% | 99.2% | |
Complete BUSCOs (%) | 98.1% | 96.4% | |
Genes | Genes/transcripts (#) | 39,252/53,210 | 39,343/45,613 |
Novel genes/transcripts (#) | 3,178/33,568 | 2,467/31,234 | |
Fusion genes (#) | 477 | 260 | |
Mean transcript length (bp) | 2910.5 | 2834.3 | |
Mean coding sequence length (bp) | 1045.9 | 1000.4 | |
TEs | Total size (bp) | 200,708,242 | 186,636,582 |
Class I: Retrotransposon (bp) | 115,342,918 | 103,171,575 | |
Class II: DNA Transposon (bp) | 85,365,324 | 83,465,007 |