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Appendix S1 Evidence for pleiotropism and recent selection in the PLAG1 region in Australian Beef cattle.

Table S1 Linkage disequilibrium (LD) analysis of the polymorphisms rs109231213, ss19607405 and ss19607406 within Brahman cattle showed that they were in complete LD.

Table S2 The SNPs in the haplotypes presented in Table 4.

Figure S1 Homologous sequences in the region of the polymorphism rs109231213 for 8 species: sheep, dog, human, chimpanzee, rhesus macaque, cattle (3 sequences), horse and rat.

Figure S21 Female puberty (age at the first corpus luteum, AGECL) in B. indicus cattle.

Figure S31 Post-partum anoestrus interval in female B. indicus cattle

Figure S41 Post-partum anoestrus interval with respect to weaning of the first calf in female B. indicus cattle.

Figure S51 Body condition score measured at approx. 18 months of age in female B. indicus cattle.

Figure S61 Scanned fat at the P8 site measured at approx. 18 months of age (first wet season P8) in female B. indicus cattle.

Figure S71 Weight measured at puberty in female B. indicus cattle.

Figure S81 Scanned fat at the P8 site measured at puberty in female B. indicus cattle.

Figure S91 Hip height in female B. indicus cattle.

Figure S101 IGF-I hormonal levels in male B. indicus cattle.

Figure S111 Male puberty (age at a scrotal circumference of 26 cm, AGE26) in B. indicus cattle.

Figure S121 Body condition score in male B. indicus cattle.

Figure S131 Hip height in male B. indicus cattle.

Figure S141 Weaning weight in male B. indicus cattle.

Figure S151 Age at first CL in female Tropical Composite cattle.

Figure S161 Post-partum anoestrus interval in female Tropical Composite cattle.

Figure S171 Post-partum anoestrus interval with respect to weaning of the first calf in female Tropical Composite cattle.

Figure S181 Scanned P8 fat depth at the first wet season in female Tropical Composite cattle.

Figure S191 Condition score at first wet season in female Tropical Composite cattle.

Figure S201 Scanned P8 fat depth when first CL was observed in female Tropical Composite cattle.

Figure S211 Live weight when first CL was observed in female Tropical Composite cattle.

Figure S221 Hip height measured at the second dry season in female Tropical Composite cattle.

1Figures S2–S22 Significance of SNPs located in BTA14 before and after fitting the rs109231213 SNP as a fixed effect in the association analysis.

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