Actually there is no direct database for that, but for separate research projects different datasets have been used usually on a GWAS basis.

http://www.heritabilitymaps.info/ this heritability mapping tool of facial surface using a so called Geodesic Ensemble Surface Sampling Algorithm

https://www.nature.com/articles/srep45885

for e.g. this GWAS study identefied some loci associated with face morphology http://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1002932 using 3D facial Norms Database.

Another GWAS study claimed DNA samples with the aim to future development of facial reconstruction method from dna samples

http://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1006149

you can get the supplemented datasets of variants and snps associated and may be you would develop a database linking them but we still need to have strong genetic evidence