Table 3 Characterization of 11,015 mismatched sequence segments in primate sequences, according to nine different features
Class | Feature | No. (%) of errors |
|---|---|---|
Evidence of gene prediction error | Genomic sequence contains N characters (introns or exons) | 5256 (47.7%) |
Primate sequence contains short introns (< 30 nucleotides) | 937 (8.5%) | |
1 Human exon aligned with ≥ 3 primate exons | 611 (5.5%) | |
Non-canonical splice sites in human sequence | 237 (2.2%) | |
Frameshift in primate exon sequence | 138 (1.3%) | |
Evidence of false positive error | Human isoform exists that matches primate sequence | 1194 (10.8%) |
Multiple alignment error | 244 (2.2%) | |
In a repeated protein region | 232 (2.1%) | |
Mixed evidence | Mismatch associated with evidence of both gene prediction error and false positive error | 341 (3.1%) |
Unconfirmed | Conserved in ≥ 4 primates | 1054 (9.6%) |
| Â | Mismatch associated with evidence of gene prediction error only | 5446 (49.4%) |
| Â | Mismatch associated with evidence of false positive error only | 4174 (37.9%) |
| Â | Mismatch associated with at least 1 feature | 7401 (67.2%) |
| Â | Mismatch associated with 0 features | 3614 (32.8%) |