The mountain dragon, Diploderma vela, is an endemic and protected valley lizard which inhabits the upper Lantsang Valley in West China. In this study, we successfully sequenced the mitochondrial genome of a male individuals of D. vela using the next-generation sequencing method. The complete mitogenome was 16,432 bp in length, containing two non-coding control regions, 13 protein-coding genes, 22 transfer RNA genes and two ribosomal RNA genes. A Bayesian phylogenetic tree using the complete mitochondrial genomes of Agamidae species showed a result consistent with previous studies. This study provides fundamental data for better understanding of the genetic evolution and the phylogenetic relationship of mountain dragon.

Total genomic DNA was extracted from liver tissue of a topotype using Trelief Animal Genomic DNA Kit following the manufacturer’s instruction with minor modification. The complete mitochondrial DNA sequence was analyzed on an Illumina HiSeq 2000 platform. Genes were assembled and annotated with the SPAdes v3.11.0 and MITOS web server, respectively. 

The mitogenomic sequence was submitted to GenBank with the accession number MW788326.