Predicting male fertility in dairy cattle using markers with large effect and functional annotation data

BMC Genomics

Table 1 Number of genetic markers mapped to different functional SNP classes

Class	Definition	Variant description	Number of SNP
5′ Region	Upstream gene variant	Located within 5000 bases of the 5′ of an annotated gene	7280
5′ Region	5’UTR	Located in the 5′ untranslated region of an annotated gene	7280
3′ Region	Downstream gene variant	Located within 5000 bases of the 3′ of an annotated gene	4122
3′ Region	3’UTR	Located in the 3′ untranslated region of an annotated gene	4122
Non-synonymous	Missense	Changes one base resulting in a different amino acid sequence, but the length of the polypeptide is preserved.	1144
Non-synonymous	Nonsense	Changes one base resulting in a premature stop codon, leading to a shortened polypeptide.	1144
Synonymous	Synonymous	Changes one base but resulting in the same amino acid.	2090
ncRNA	ncRNA	Located in a non-coding RNA gene	1556

ISSN: 1471-2164