Table 7 Statistics of predicted genes.
From: Draft genome of the big-headed turtle Platysternon megacephalum
Gene set | Number | Average transcript length (bp) | Average CDS length (bp) | Average exons per gene | Average exon length (bp) | Average intron length (bp) | |
|---|---|---|---|---|---|---|---|
Ab initio prediction | Augustus | 29,895 | 20,126.36 | 1,083.78 | 5.51 | 196.7 | 4,222.41 |
GlimmerHMM | 163,252 | 12,105.64 | 451.4 | 3.91 | 115.37 | 4,001.41 | |
SNAP | 83,162 | 36,326.76 | 549.05 | 3.61 | 152.28 | 1,3731.58 | |
Homolog prediction | Alligator sinensis | 57,621 | 9,467.09 | 794.29 | 3.45 | 230.02 | 3,535.42 |
Chelonia mydas | 37,629 | 15,048.25 | 1,093.96 | 4.9 | 223.12 | 3,575.20 | |
Chrysemys picta bellii | 50,264 | 11,904.42 | 997.94 | 4.25 | 234.74 | 3,354.46 | |
Deinag kistrodon acutus | 48,759 | 9,535.70 | 977.63 | 3.55 | 275.28 | 3,354.26 | |
Gallus gallus | 45,081 | 11,902.30 | 950.46 | 3.91 | 243.04 | 3,762.56 | |
Gekko japonicus | 34,511 | 14,745.27 | 1,136.85 | 4.8 | 236.7 | 3,578.43 | |
Nanorana parkeri | 45,954 | 11,607.88 | 1,038.09 | 3.75 | 276.62 | 3,839.62 | |
Parus major | 41,843 | 13,708.70 | 1,120.03 | 4.2 | 266.87 | 3,937.77 | |
Pelodiscus sinensis | 46,338 | 11,270.86 | 981.39 | 4.05 | 242.04 | 3,368.40 | |
Philomachus pugnax | 74,533 | 7,567.03 | 696.45 | 3.09 | 225.04 | 3,279.82 | |
Xenopus leavis | 38,766 | 11,659.15 | 1,052.39 | 4.05 | 260 | 3,480.37 | |
RNASeq | PASA | 106,250 | 23,132.29 | 1,040.89 | 5.91 | 176.10 | 4,498.48 |
Cufflinks | 101,071 | 32,403.47 | 3,407.83 | 6.79 | 502.11 | 5,010.49 | |
EVM | 396,95 | 17,966.58 | 987.68 | 5.19 | 190.45 | 4,056.02 | |
Pasa-update* | 39,212 | 21,180.40 | 1,029.81 | 5.39 | 191.11 | 4,591.49 | |
Final set* | 25,995 | 30,713.64 | 1,298.80 | 7.33 | 177.28 | 4,649.67 | |
