Table 1. Some numbers about the ANISEED 2015 genome assemblies, gene annotations and gene expression patterns.
| Species (reference when published) | Genome (N50 scaffold size, assembly size) | Blast search | ESTs (x1000) | Embryo RNA-seq | cDNA collection | Gene models (#) | Interpro domains (mean #/gene model) | Best Blast hits to Man | # ascidian genes with human ortholog | # human genes with ascidian ortholog | GO terms (mean #/gene model) | Cis-reg. elements (#) | ISH patterns (#patterns; # genes) | Cis-reg. activity patterns |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| C. intestinalis type A (48) | 5.15 Mb, 115 Mb | Yes | 12051 | Yes | Yes (2) | 15 284 | 2.16 | Yes | 7944 | 10 548 | 10.8 | 875 | 27 562; 4500 | 944 |
| C. intestinalis type B | 3.7 kb, 200 Mb | Yes | -1 | -1 | -1 | - | - | - | - | - | -1 | -1 | -1 | |
| C. savignyi (77) | 1.78 Mb, 174 Mb | Yes | 84 | - | - | 12 165 | 2.05 | Yes | 6832 | 9180 | 10.1 | - | - | - |
| P. mammillata | 94.8 kb, 234 Mb | Yes | 151 | Yes | Yes (1) | 19 508 | 2.01 | Yes | 8112 | 10 222 | 9.8 | - | - | - |
| P. fumigata | 11.5 kb, 249 Mb | Yes | - | - | - | - | - | - | - | - | - | - | - | |
| H. roretzi | 200 kb, 120 Mb | Yes | 118 | Yes | - | 16 079 | 2.27 | Yes | 7955 | 10 286 | 10.6 | - | 5876; 937 | - |
| H. aurantium | 30.9 kb, 128 Mb | Yes | - | - | - | - | - | - | - | - | - | - | - | |
| M. oculata (40) | 34 kb, 160 Mb | Yes | - | - | - | 15 313 | 2.21 | Yes | 9888 | 9638 | 10.8 | - | - | - |
| M.occulta (40) | 13 kb, 189 Mb | Yes | - | - | - | - | - | - | - | - | - | - | - | |
| M. occidentalis (40) | 26.3 kb, 262 Mb | Yes | - | - | - | - | - | - | - | - | - | - | - | |
| B. schlosseri (44) | 38 kb, 580 Mb | Yes | 98 | - | - | 46 519# | 0.97 | Yes | 9499 | 8269 | 5.7 | - | - | - |
1Some type A RNA sequences may correspond to type B individuals. #: filtered from Ref. 44 by removing monoexonic genes <1kb.