Table 1.

Top loci associated with conception rate to first breeding and number of breedings to conception

BTA1	BP Position2	SNP ID3	Model4	CCR1 P-value5	TBRD P-value6	Positional Candidate Gene(s)7	TFBS8
3	111,540,905 (110,948,044)	rs133945887	Recessive	1.33 × 10−14	7.25 × 10−12	GJB5, GJB4	–
6	38,447,022 (37,013,919)	rs109381958	Additive Dominant	4.31 × 10−30 4.31 × 10− 30	4.39 × 10− 26 4.39 × 10− 26	–	–
6	93,660,111 (91,908,296)	rs132854961	Recessive	1.56 × 10− 14	8.38 × 10− 12	CCNI, LOC101901983	–
8	29,615,889 (29,565,411)	rs134405734	Additive Dominant	1.42 × 10− 36 1.42 × 10− 36	1.25 × 10− 24 1.25 × 10− 24	ZDHHC21	–
16	387,363 (591,660)	rs133778157	Additive Dominant	2.99 × 10− 33 2.99 × 10− 33	5.68 × 10− 28 5.68 × 10− 28	LOC787642, LOC787620, LOC787667	–
16	10,340,087 (9,739,230)	rs137501137	Recessive	5.27 × 10− 14	1.12 × 10− 13	–	NF-1, Cutl1
17	74,944,074 (72,930,491)	rs133921184	Additive Dominant	3.35 × 10−37 2.93 × 10− 37	2.59 × 10− 23 5.98 × 10− 22	ARVCF, COMT	–
20	23,886,196 (23,863,171)	rs41663374	Recessive	9.41 × 10− 17	1.58 × 10− 11	DHX29, LOC107131567	–

¹Chromosome location of the locus

²Single nucleotide polymorphism (SNP) location as measured by numbered nucleotides in reference to the UMD 3.1 genome assembly (http://bovinegenome.org/?q=node/61; accessed 15 September 2016) or the ARS 1.2 genome assembly (https://www.animalgenome.org/repository/cattle/UMC_bovine_coordinates/; accessed 19 September 2018) in parentheses

³The most significant SNP in the locus associated cow conception rate as identified by rs number which is a reference number assigned to markers submitted to the National Center for Biotechnology Information SNP database (https://www.ncbi.nlm.nih.gov/projects/SNP/; accessed 2 April 2018)

⁴Genome-wide association model

⁵Significance (P-value) of the most significant SNP associated with cow conception rate at first service (CCR1)

⁶Significance (P-value) of the most significant SNP associated with number of services per conception (TBRD)

⁷Positional candidate genes are defined as genes that are located within 17.8 kb on either side of the associated SNP(s)

⁸Transcription factor binding sites (TFBS) as identified using the Alggen Promo database (http://alggen.lsi.upc.es/cgi-bin/promo_v3/promo/promoinit.cgi?dirDB=TF_8.3; accessed 26 July 2018)