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We present a genome assembly from an individual Sambucus nigra (the European elder; Streptophyta; Magnoliopsida; Dipsacales; Adoxaceae). The genome sequence has a total length of 11,813.70 megabases. Most of the assembly is scaffolded into 18 chromosomal pseudomolecules. The mitochondrial and plastid genome assemblies have lengths of 724.11 kilobases and 158.06 kilobases, respectively.

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