Table 2 Annotation results statistics of SNPs and indels containing candidate region
From: Selection of functional EPHB2 genotypes from ENU mutated grass carp treated with GCRV
Different region and types of Mutation | SNP annotation result statistics | InDel annotation result statistics | SNP annotation results Statistics in candidate regions | InDel annotation results statistics in the candidate regions |
|---|---|---|---|---|
| Â | S01vsR02 | S01vsR02 | S01vsR02 | S01vsR02 |
INTERGENIC | 220,527 | 89,734 | 4223 | 1797 |
INTRON | 144,560 | 27 | 2538 | 1242 |
UPSTREAM | 37,653 | 66,109 | 618 | 266 |
DOWNSTREAM | 37,132 | 16,283 | 653 | 232 |
UTR_5_PRIME | 3202 | 16,315 | 43 | 25 |
UTR_3_PRIME | 4074 | 1945 | 60 | 26 |
SPLICE_SITE_ACCEPTOR | 118 | 2169 | 1 | 1 |
SPLICE_SITE_DONOR | 100 | 94 | 2 | 2 |
SPLICE_SITE_REGION | 912 | 66 | 20 | 5 |
FRAME_SHIFT | – | – | – | 50 |
CODON_INSERTION | – | – | – | 7 |
CODON_DELETION | – | – | – | 6 |
CODON_CHANGE_PLUS_CODON_INSERTION | – | – | – | 3 |
CODON_CHANGE_PLUS_CODON_DELETION | – | – | – | 3 |
START_GAINED | 648 | 401 | 7 | – |
START_LOST | 5 | 15 | – | – |
SYNONYMOUS_START | 3 | 3272 | 1 | – |
NON_SYNONYMOUS_START | 1 | 276 | – | – |
SYNONYMOUS_CODING | 7251 | 271 | 139 | – |
NON_SYNONYMOUS_CODING | 9298 | 150 | 180 | – |
SYNONYMOUS_STOP | 71 | 277 | – | – |
STOP_GAINED | 449 | 178 | 6 | 2 |
STOP_LOST | 158 | 62 | 1 | 1 |
Other | 0 | 0 | 0 | 0 |
Total | 466,162 | 197,644 | 8492 | 3668 |