This case report describes two brothers with severe pediatric intestinal pseudo-obstruction (PIPO) caused by compound heterozygous variants in the ACTG2 gene: a maternally inherited missense variant (p.Val10Met) and a paternally inherited 6.8 kb deletion involving noncoding exon 1. The mother and maternal relatives had mild chronic constipation, demonstrating that monoallelic hypomorphic ACTG2 variants cause mild symptoms while biallelic variants cause severe disease. The findings highlight the importance of genome sequencing over exome sequencing for detecting noncoding exon deletions that may explain intrafamilial variability in ACTG2-related visceral myopathy.