Dear colleagues - I have encountered a problem of genotype data merging for overlapped SNPs by chromosome and position. However, these two data files have different names. Map file 1 is an older one that used previous genome assembly with SNP names as follows:

File1.map

0   rs42206466  0   148304112
1   rs41609588  0   135098
1   rs108982244 0   267940
1   rs43703977  0   393248
1   rs110887329 0   471078
1   rs29015852  0   516404
1   rs110936909 0   571340
1   rs108981857 0   845494
1   rs110467572 0   883895
1   rs109719982 0   905632

I have another file that was genotyped recently using ARS 1.2 and its map file has different snp Names. However, the literature says file1 and file 2 have close to 30k overlapped variants. The second mapfile (file2.map) has different name for SNPs as it used an updated version of the 2018.

File2.map

1   chr3_133498 0   649094
1   BovineHD0100000005  0   655346
1   BovineHD0100000035  0   761316
1   Hapmap43437-BTA-101873  0   776231
1   BovineHD0100000042  0   790905
1   BovineHD0100000043  0   792193
1   BovineHD0100000048  0   799951
1   BovineHD0100000051  0   805126
1   BovineHD0100000057  0   824172
1   BovineHD0100000066  0   842891

How can I merge these two files with overlapped variants? What would be the updated name of SNPs for file 1 in ARS 1.2 version so that I can merge file1.map and file2.map based on overlapped variants by chromosome and position. Or if there is any other alternative way-outs to handle this problem?