Analysis of a large dataset reveals haplotypes carrying putatively recessive lethal and semi-lethal alleles with pleiotropic effects on economically important traits in beef cattle

Table 3 Identified haplotypes carrying putatively recessive lethal or semi-lethal alleles

Haplotype name	Test^a	Chr^b	Haplotype region	Sliding window	Start base	End base	Haplotype percentage
AA14H1	T4	14	AA14R1	4	6,819,966	7,514,610	25.2
AA14H2	T4	14	AA14R2	9	7,646,485	8,425,401	15.3
AA14H3	T4	14	AA14R3	20	8,064,004	8,927,881	15.2
AA14H4	T3	14	AA14R3	9	8,454,690	9,215,622	15.3
AA18H5	T4	18	AA14R4	4	49,446,631	50,616,688	18.9
AA19H6	T4	19	AA14R5	8	48,850,043	48,874,999	23.9
CH13H1	T4	13	CH13R1	19	61,565,261	61,584,644	33.5
CH19H2	T4	19	CH19R2	5	48,874,999	48,902,319	14.4
CH19H3	T3	19	CH19R2	12	48,889,025	48,914,435	1.2
HE6H1	T4	6	HE6R1	8	58,473,731	59,706,074	30.2
HE6H2	T4	6	HE6R2	4	59,688,857	60,919,136	28.8
HE19H3	T2, T4	19	HE19R3	13	48,854,119	48,900,428	28.9
LI19H1	T5	19	LI19R1	20	48,851,566	48,871,260	12.7
LI19H2	T2	19	LI19R1	11	48,883,348	48,906,682	11.1
LI23H3	T4	23	LI23R2	20	27,923,154	28,649,349	13.7
LI23H4	T4	23	LI23R3	12	28,307,706	29,872,481	11.5
SI13H1	T2	13	SI13R1, SI13R2	15	73,746,516	74,973,171	9.5
SI13H2	T4	13	SI13R1, SI13R2, SI13R3	19	73,895,443	75,240,419	22.3
SI13H3	T2	13	SI13R2, SI13R3	1	74,109,992	75,310,875	9.3
SI16H4	T2	16	SI16R4, SI16R5	16	51,195,450	53,097,936	10.8
SI16H5	T1	16	SI16R4, SI16R5	4	51,811,400	53,434,159	8.8
SI19H6	T2, T4	19	SI19R6	18	48,873,060	48,891,361	18.4

^aT1: population test; T2: carrier mating test on sire × dam matings; T3: carrier mating test on sire × maternal grand-sire matings; T4: semi-lethality test on sire × dam matings; T5: semi-lethality test on sire × maternal grand-sire matings
^bChr: chromosome number

ISSN: 1297-9686