Table I. Annotation of the high-scoring causal mutations identified on chromosome 9 for the glossy fruit mutant.

Filtered EMS mutations were annotated using SnpEff version 4.1 (Cingolani et al., 2012) from build release SL2.50 available on the SGN Web site (http://solgenomics.net). Two EMS missense mutations (mutations at positions 5,902,976 and 6,873,436 on chromosome 9) located in exonic regions may affect protein function. An additional mutation at position 35,265,019 causes a synonymous amino acid change in an exonic region.

EMS Position	Mutation	Read Depth	Gene Position	Mutation Type	Tomato Gene Identifier	Gene Annotation
5,902,976	C to T	28	Exonic	Missense (G to R)	Solyc09g014350	GPAT6
6,873,436	C to T	21	Exonic	Missense (S to F)	Solyc09g014770	AMP deaminase
35,265,019	G to A	21	Exonic	Synonymous (L to L)	Solyc09g050010	Retrotransposon gag protein