Table 2 Summary statistics and annotation comparison of cucumber genome.
From: RNA-Seq improves annotation of protein-coding genes in the cucumber genome
Genome | assemVer 1.0 | assemVer 2.0 | assemVer 2.0 |
|---|---|---|---|
Size (bp) | 243, 568, 484 | 197, 271, 687 | 197, 271, 687 |
GC Content | 31.50% | 31.86% | 31.86% |
Genes | annotVer 1.0 | annotVer 1.0 (mapped) | annotVer 2.0 |
Number of Genes | 26, 682 | 20, 923 | 23, 248 |
Number of Genes on Plus Strand | 13, 331 | 10, 488 | 11, 656 |
Number of Genes on Minus Strand | 13, 351 | 10, 435 | 11, 592 |
Mean Gene Length (bp) | 2, 685 | 2, 966 | 3, 213 |
Gene density (Kb/gene) | 9.1 | 9.4 | 8.5 |
Number of Transcripts | 26, 682 | 20, 923 | 25, 600 |
Percent of Transcripts with Introns | 69.37% | 74.36% | 81.55% |
Mean Transcript Length (bp) | 2, 685 | 2, 966 | 3, 314 |
Mean CDS Length | 1, 046 | 1, 095 | 1, 134 |
Percent Coding | 11.49% | 11.64% | 14.75% |
Exons | annotVer 1.0 | annotVer 1.0 (mapped) | annotVer 2.0 |
Number | 117, 116 | 100, 721 | 136, 008 |
Mean Number per Transcript | 4.39 | 4.81 | 5.31 |
GC Content | 44.96% | 43.73% | 42.03% |
Mean Length (bp) | 239 | 228 | 270 |
Total Length (bp) | 27, 991, 662 | 22, 988, 520 | 36, 686, 879 |
Introns | annotVer 1.0 | annotVer 1.0 (mapped) | annotVer 2.0 |
Number | 90434 | 79, 798 | 110, 408 |
Mean Number per Transcript | 3.39 | 3.81 | 4.31 |
GC Content | 32.18% | 32.37% | 32.44% |
Mean Length (bp) | 483 | 490 | 436 |
Total Length (bp) | 43, 647, 564 | 39, 074, 873 | 48, 152, 435 |
UTRs | annotVer 1.0 | annotVer 1.0 (mapped) | annotVer 2.0 |
Number of Genes Having UTRs | NA | NA | 18, 690 |
Mean UTR Length (bp) | NA | NA | 234 |
Number of 5' UTRs | NA | NA | 15, 703 |
Mean 5' UTR Length (bp) | NA | NA | 175 |
Number of 3' UTRs | NA | NA | 16, 737 |
Mean 3' UTR Length (bp) | NA | NA | 289.08 |