Table 2. Annotations statistics.
CNE, conserved noncoding element (i.e., potential enhancers/promoters); GO, gene ontology.
| Goldfish | Common carp |
Zebrafish (danRer10) |
|
|
Assembly size (bp) |
1,820,635,051 | 1,713,641,436 | 1,371,719,383 |
| GC content | 37.48% | 36.99% | 36.64% |
| Repeats (bp) | 721,087,053 (39.6%) | 672,246,354 (39.2%) | 745,150,642 (54.3%) |
|
Protein-coding genes |
70,324 | 66,999 | 25,600 (Ensembl release 85) |
| Genes with GO | 49,272 | – | 18,779* |
| Exons | 556,731 | 547,164 | 276,021 |
|
Genes with InterPro |
49,272 | 44,845* | 24,204* |
| miRNA | 1,037 | – | 769 |
|
ncRNA (noncoding RNA) |
11,820 | – | – |
|
4-way CNE counts |
486,767 | 484,139* | 237,891* |
| 4-way CNE bp | 95,815,233 | 97,818,440* | 44,090,004* |
|
Missing BUSCOs (of 3023) |
167 | 330* | 0 (used for original BUSCO set) |
*Data generated from this study.