[Objective] Pepper is the largest vegetable crop planted in China. With the increasingly serious salinization of land in China, it is of great significance to strengthen the research of pepper salt tolerance mechanism to promote the sustainable development of pepper industry. Therefore, it is urgent to accelerate the functional study of key genes related to pepper salt tolerance. [Methods] In the early stage of this study, the transcription factor CaNAC36 related to pepper salt tolerance was excavated. On this basis, the full-length gDNA and cDNA sequences of CaNAC36 were cloned using salt-tolerant capsicum PI201224 and salt-sensitive capsicum PI438643 as test varieties. The expression of CaNAC36 and its interacting genes in different tissues under salt stress was quantitatively analyzed by fluorescence, and the potential relationship between CaNAC36 and its interacting genes was further explored by bioinformatics analysis. [Results] The results showed that the DNA and cDNA sequence homology of the CaNAC36 in salt-tolerant and salt-sensitive materials were 99.86% and 100%, respectively. The results of fluorescence quantification showed that the CaNAC36 showed an up-expression of in roots and stems salt-tolerant pepper, and a down-expression in salt-sensitive roots and leaves. After analyzing the annotation information of 48 genes that may interact with CaNAC36, it was found that 14 genes belonging to transmembrane protein, transporter protein, water porin, chloride channel protein, detoxifying protein and other genes may have functional interaction with CaNAC36. Further analysis revealed that PI201224 and PI438643 exhibited significant differences in the expression of five related genes (Capana08g002748, Capana00g004514, Capana09g000275, Capana07g001450, Capana02g001031) at different time points and tissues under salt stress treatment. Meanwhile, the promoter domains of CaNAC36 and 5 associated genes were found to contain a large number of stress-related cis-acting elements. [Conclusion] This study combined with gene cloning, gene expression level analysis and bioinformatics analysis, found that CaNAC36 was an important transcription factor in pepper response to salt stress, and may interact with other genes to improve plant salt tolerance. This study provides data support for in-depth research on pepper salt tolerance and breeding of salt-tolerant varieties.