AIM: To study the EBV LMP-1 gene integrated in the chromosome of poorly differentiated nasopharyngeal carcinoma cell line SUNE-1. METHODS: The LMP-1 gene of SUNE-1 was detected with PCR; Deletion of LMP-1 was examined by restriction endonuclease analysis and PCR. The deletion was precisely localized by DNA sequencing. RESULTS: The LMP-1 gene integrated in the chromosome of SUNE-1 could be deleted or non-deleted. The two introns of LMP-1 gene were shown being lost in SUNE-1 cell line. CONCLUSION: Deletion of intron 1 and intron 2 happen in some of the LMP-1 gene integrated in the chromosome of SUNE-1.