RNA sequencing reveals candidate genes and polymorphisms related to sperm DNA integrity in testis tissue from boars

Table 3 Effects of putative SNPs

SNP effect	After filtration		Joined with gene expression results
	Landrace	Duroc	Landrace	Duroc
3’UTR	17,741	17,715	573	627
5’UTR	3622	3691	62	102
Frameshift	453	516	3	12
Missense	9946	10,424	267	246
Splice acceptor	16	17	0	0
Splice donor	12	12	0	0
Splice site region	338	362	3	7
Start lost	13	8	1	0
Stop gained	68	63	0	3
Stop lost	27	34	0	2
Synonymous	21,060	21,273	610	731
SNP impact
High	600	663	4	17
Moderate	10,006	10,486	269	250
Low	21,974	22,200	623	752
Modifier	23,251	23,293	676	807

SNP effect according to SnpEff for putative polymorphisms detected in Landrace and Duroc. The results presented are after filtration and joined with differentially expressed genes. Some SNPs have more than one predicted effect

ISSN: 1746-6148