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Table 2 Genetic variants for known traits and diseases.

From: Whole genome sequence and analysis of the Marwari horse breed and its genetic origin

PMID CHR Coordinate Gene Phenotype Associated Genotype Marwari Genotype
21070277 [29] 1 74,842,283 ACTN2 Racing performance A>G A/A
20353955 [30] 1 108,249,293 TRPM1 Leopard complex spotting and congenital stationary night blindness C>T C/C
17498917 [31] 1 128,056,148 PPIB Hereditary equine regional dermal asthenia G>A G/G
20419149 [32] 1 138,235,715 MYO5A Lavender foal syndrome Del 1 bp neg
21070277 [29] 3 32,772,871 COX4I1 Racing performance C>T T/C
8995760 [33] 3 36,259,552 MC1R Chestnut coat color C>T C/C
11086549 [34] 3 36,259,554 MC1R Chestnut coat color G>A G/G
16284805 [35] 3 77,735,520 KIT Sabino spotting A>T A/A
18253033 [36] 3 77,740,163 KIT Tobiano spotting pattern G>A G/G
22808074 [37],
22615965 [38]
3 105,547,002 LCORL, NCAPG Large body size T>C T/T
21070277 [29] 4 40,279,726 ACN9 Racing performance C>T T/T
12230513 [39] 5 20,256,789 LAMC2 Junctional epidermolysis bullosa Ins C neg
17029645 [40] 6 73,665,304 PMEL17 Silver coat color G>A G/G
22808074 [37] 6 81,481,065 HMGA2 Large body size C>T T/T
19016681 [41] 8 45,603,643- 45,610,231 LAMA3 Junctional epidermolysis bullosa Del 6589 neg
9103416 [42] 9 35,528,429 DNAPK Severe combined immunodeficiency Del 5 bp neg
22615965 [38] 9 74,795,013 ZFAT Wither height C>T C/C
22808074 [37] 9 75,550,059 ZFAT Large body size C>T C/C
15318347 [43] 10 9,554,699 RYR1 Malignant hyperthermia C>G C/C
21059062 [44] 10 15,884,567 CKM Racing performance G>A G/G
18358695 [45] 10 18,940,324 GYS1 Polysaccharide storage myopathy C>T C/C
7623088 [46] 11 15,500,439 SCN4A Equine hyperkalemic periodic paralysis C>T C/C
22808074 [47] 11 23,259,732 LASP1 Large body size G>A A/A
21070269 [47] 14 3,761,254 PROP1 Dwarfism G>C G/G
18802473 [48] 14 26,701,092 SLC36A1 Champagne dilution G>C G/G
17901700 [49] 14 27,991,841 SCL26A2 Autosomal recessively
inherited chondrodysplasia
A>G G/G
9580670 [50] 17 50,624,658 EDNRB Lethal white foal syndrome GA>CT GA/GA
20932346 [51] 18 66,493,737 MSTN Optimum racing performance T >C T/T
12605854 [52] 21 30,666,626 SLC45A2 Cream coat color G>A G/G
21059062 [44] 22 22,684,390 COX4I2 Racing performance C>T C/C
11353392 [53] 22 25,168,567 ASIP Black and bay color Del 11 bp Neg
22932389 [54] 23 22,999,655 DMRT3 Pattern of locomotion (altered gait) C>A A/C
18641652 [55] 25 6,574,013-
6,581,600
STX17 Gray coat color Dup 4600 neg