Additional file 2: Table S1. of Maternal variant in the upstream of FOXP3 gene on the X chromosome is associated with recurrent infertility in Japanese Black cattle

Detailed features among SNPs in QTL_2 and QTL_5 for infertility in repeat-breeding Japanese Black heifers that failed to conceive by ET Positions are based on the UMD3.1 assembly of the bovine genome. a QTL_No. are shown in Table 1. Table S2. Neighboring Ensembl genes in QTLs on the X chromosome associated with infertility in repeat-breeding Japanese Black heifers that failed to conceive by ET. Positions are based on the UMD3.1 assembly of the bovine genome. a QTL_No. are shown in Table 1. Table S3. PANTHER gene ontology analyses of genes in the QTLs. Positions are based on the UMD3.1 assembly of the bovine genome. a QTL_No. are shown in Table 1. Table S4. Cattle QTLdb hits within and near QTL_2 and QTL_5. Positions are based on the UMD3.1 assembly of the bovine genome. a QTL No. are shown in Table 1. b QTL_ID and Trait_ID were assigned using Cattle QTLdb. c PUBMED_ID were assigned using Cattle QTLdb. Table S5. The risk-haplotype in the QTL_2 for infertility in repeat-breeding Japanese Black heifers that failed to conceive by ET. Positions are based on the UMD3.1 assembly of the bovine genome. Table S6. Sequence ontology in QTL_2. a Sequence ontology was assigned to an allele by Ensembl variant effect predictor (VEP). Table S7. Detailed features of FOXP3 (ENSBTAT00000017660) transcript and the exon positions. Positions are based on the UMD3.1 assembly of the bovine genome. Table S8. Primer information for FOXP3 (ENSBTAT00000017660). Table S9. Detailed features of RUNX binding site in FOXP3 reporter construct (92375252â 92,377,691Â bp). Positions are based on the UMD3.1 assembly of the bovine genome. (XLSX 78 kb)本数据集包含针对通过胚胎移植（Embryo Transfer, ET）未受孕的重复配种日本黑牛青年母牛不育相关的QTL_2与QTL_5区域内单核苷酸多态性（Single Nucleotide Polymorphism, SNP）的详细特征。所有位点均基于牛基因组UMD3.1组装版本进行标注。注：a QTL（Quantitative Trait Locus, QTL）编号详见表1。表S2：针对通过胚胎移植未受孕的重复配种日本黑牛青年母牛不育相关的X染色体QTL区域内邻近Ensembl基因的相关信息。所有位点均基于牛基因组UMD3.1组装版本进行标注。注：a QTL编号详见表1。表S3：QTL区域内基因的PANTHER基因本体（Gene Ontology, GO）分析结果。所有位点均基于牛基因组UMD3.1组装版本进行标注。注：a QTL编号详见表1。表S4：QTL_2与QTL_5区域内及邻近区域的牛数量性状位点数据库（Cattle QTLdb）匹配结果。所有位点均基于牛基因组UMD3.1组装版本进行标注。注：a QTL编号详见表1；b QTL编号与性状编号（Trait_ID）由牛数量性状位点数据库分配；c PubMed编号（PUBMED_ID）由牛数量性状位点数据库分配。表S5：针对通过胚胎移植未受孕的重复配种日本黑牛青年母牛不育相关的QTL_2区域风险单倍型信息。所有位点均基于牛基因组UMD3.1组装版本进行标注。表S6：QTL_2区域的序列本体（Sequence Ontology, SO）注释。注：a 序列本体由Ensembl变异效应预测器（Variant Effect Predictor, VEP）分配至等位基因。表S7：FOXP3基因（转录本编号ENSBTAT00000017660）的转录本详细特征及其外显子位置信息。所有位点均基于牛基因组UMD3.1组装版本进行标注。表S8：FOXP3基因（转录本编号ENSBTAT00000017660）的引物信息。表S9：FOXP3报告基因构建体中RUNX结合位点（坐标区间92375252–92377691 bp）的详细特征。所有位点均基于牛基因组UMD3.1组装版本进行标注。（XLSX格式，大小78 KB）