Identification and utilization of wheat resistance is an effective strategy to control stripe rust. Wheat cultivar Xinong 3517 (XN3517) has remained highly-level resistance to stripe rust in the field since its release in 2008. To study the genetic architecture of stripe rust resistance, the mapping population Avocet S × Xinong 3517 (161 recombinant inbred lines, RILs) was genotyped using GenoBaits Wheat 16K Panel. Based on Wheat 660K array and bulked segregant exome sequencing (BSE-seq) data, the most effective QTL on chromosome 1BL, was mapped within a 1.7 cM region [corresponding to a physical interval of 336 kb including twelve candidate genes in International Wheat Genome Sequencing Consortium (IWGSC) RefSeq version 1.0] in wheat cultivar Xinong 3517 (XN3517). Association analysis revealed 30 significant markers from the BSE-Seq and 660K chip in an enlarged candidate region (1BL: 673.4-676.2 Mb) among 853 wheat cultivars and breeding lines with stripe rust response. Finally, the results identified that the marker nwafu.k5 was the most significantly associated with stripe rust resistance compared to other markers and it closely linked with YrXN3517. According to the gene annotation and qRT-PCR test, TraesCS1B02G460300 encoding lipid transfer protein was likely the candidate gene. A series of molecular biology experiments are underway and the more effort will be benefit for understanding of adult-plant resistance to stripe rust in wheat.