Structural variants and short tandem repeats impact gene expression and splicing in bovine testis tissue

The files are output data of the research article “Structural variants and short tandem repeats impact gene expression and splicing in bovine testis tissue”. For details, please read the methods section. Sample_info_file.txt The file contains accession IDs of DNA and RNA sequencing samples along with associated information about coverage and breed. ARS_UCD1.2.Bos_taurus_hipstr_reference_STR_autosome.bed: This BED file contains the reference short tandem repeat (STR) loci derived from the ARS UCD 1.2 bovine genome using the tandem repeat finder. Within the file, ‘refseq’ is sequence of STR motif. Autosomal_STR_genotyped_in_183samples_final.txt This file contains information regarding genotyped STR loci in 183 animals, genotyped using HipSTR. In the file, 'Pos' signifies the starting position determined by HipSTR, while the start and end locations correspond to the reference STR. 'Bpdiffs' represents the base pair differences observed for each ALT allele (same order as ALT allele), 'AC' indicates allele count in genotypes, for each ALT allele (same order as ALT allele), and 'AN' stands for the total number of genotyped alleles. All_SVtype_final_filter.txt: This file contains information regarding all structural variants (SVs) genotyped in 183 animals. Within the file, 'BND' SV type possesses a length of 0, represented by a '.' . 'AC' represents the allele count for each alternative (ALT) allele (all are biallelic), while 'AN' stands for the total number of genotyped alleles