Construction of a large collection of small genome variations in French dairy and beef breeds using whole-genome sequences

Table 3 Results of functional annotation by VEP

Functional class	All	SNP	InDels
3′ UTR variant	70,139	61,080	9059
5′ UTR variant	14,899	13,696	1203
Frameshift variant	2287	0	2287
Inframe deletion	814	0	814
Inframe insertion	358	0	358
Splice acceptor variant	649	510	139
Splice donor variant	1471	1378	93
Start lost	169	169	0
Stop gained	1159	1139	20
Stop lost	68	67	1
Mature miRNA variant	171	135	36
Intron variant	8,446,403	7,513,594	932,809
Downstream gene variant	1,335,987	1,179,502	156,485
Intergenic variant	18,568,837	16,664,272	1,904,565

This table summarizes the functional classification of all variants reported in this study

ISSN: 1297-9686