Hevea pauciflora
belongs to the Euphorbiaceae family, an important wild relative of the rubber tree. This study sequenced, assembled, and annotated the complete chloroplast genome of
H. pauciflora
. The complete chloroplast genome is 161,123 bp with a canonical quadripartite structure containing a large single-copy (LSC) region (89,109 bp), a small single-copy (SSC) region (18,376 bp), and two inverted repeat regions (IRa and IRb) (26,819 bp, each). A total of 134 genes were annotated, including 86 protein-coding genes, four pseudogenes, 36 tRNA genes, and eight rRNA genes. The 134 genes include four major groups: ‘self-replication’, ‘photosynthesis’, ‘unknown function’, and ‘others’. A phylogenetic analysis clustered
H. pauciflora
,
H. brasiliensis
,
H. camargoana
, and
H. benthamiana
into one clade, consistent with traditional taxonomy. This study provides useful data for further studies of
Hevea
genus and the phylogenetic relationships of Euphorbiaceae species.