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Table 7 Counts of consequences of SNP for gene structure. Counts of consequences for gene structure of SNP within genes for each group of sequences

From: A simple procedure for directly obtaining haplotype sequences of diploid genomes

Consequence EAZ Angus Cow Angus Bull
3 prime UTR variant 25,922 8709 8272
5 prime UTR variant 4773 1255 1259
Coding sequence variant 134 26 16
Downstream gene variant 100,961 32,248 27,382
Initiator codon variant 84 32 31
Intron variant 3,672,920 1,250,026 1,077,417
Mature miRNA variant 70 39 40
Missense variant 37,979 14,081 14,774
Non-coding transcript variant 6027 2258 1931
Non-coding exon variant 5749 2186 1872
Splice acceptor variant 252 97 195
Splice donor variant 251 92 144
Splice region variant 9735 3136 3120
Stop gained 401 196 403
Stop lost 23 8 16
Stop retained variant 37 8 11
Synonymous variant 53,102 16,231 12,837
Upstream gene variant 91,273 30,948 27,759