Fig. 3

Characterization of two structural variants in the two associated regions. a Genomic coverage of different phenotype groups at the 10.1-kb deletion site (adjusted for the chromosome-wide coverage and calculated in 1-kb sliding windows). b The screen capture of aligned short reads featuring a 10.1 kb deletion between 129,424,781 and 129,434,939 bp on chromosome 1 using IGV. c Genomic coverage of different phenotype groups at the 480-kb duplication site (adjusted for the chromosome-wide coverage and calculated in 1-kb sliding windows). d The screen capture of aligned short reads featuring a 10.1 kb deletion between 150,334,286 and 150,818,098 bp on chromosome 1 using IGV. e A diagram showed the inverse insertion of the 480-kb duplication at the PIS location in the genomes of polled and PIS goats. f Confirmation of the inverse insertion of the 480-kb duplication into the PIS deletion in PIS goats by PCR amplification and Sanger sequencing