Table 4. Splice variants of hexaploid wheat AOX genes.

Gene Name	Status	Points of Difference
TaAOX1a-2AL.sv1	Wildtype	Intron retention: Portion of exon 1 in wildtype is intron 1 in variant.
TaAOX1a-2AL.sv2	Variant
TaAOX1a-2BL	N/A	N/A
TaAOX1a-2DL.sv1	Wildtype	Intron retention: Portion of exon 1 in wildtype is intron 1 in variant.
TaAOX1a-2DL.sv2	Variant
TaAOX1a-like-2DL	N/A	N/A
regTaAOX-4BL.sv1	Wildtype	Intron retention: Portion of exon 2 in wildtype is part of intron 2 in variant. Portion of exon 4 in variant is intron 4 in wildtype.
regTaAOX-4BL.sv2	Variant
regTaAOX-4BL.sv3	Variant	Intron retention: Portion of exon 2 in wildtype is a part of intron 2 in variant. Portion of exon 2 in variant is part of intron 1 in wildtype. Portion of exon 4 in variant is intron 4 in wildtype.
regTaAOX-4BL.sv4	Variant	Intron retention: Portion of exon 4 in variant is intron 4 in wildtype.
put.regTaAOX-3B	N/A	N/A
put.regTaAOX-6BL	N/A	N/A
TaAOX1c-6AL	N/A	N/A
TaAOX1c-6BL.sv1	Wildtype	Intron retention: Portion of exon 1 in wildtype is part of intron 1 in variant. Portion of exon 4 in wildtype is part of intron 5 in variant.
TaAOX1c-6BL.sv2	Variant
TaAOX1c-6BL.sv3	Variant	Intron retention: Portion of exon 4 in wildtype is intron 4 in variant.
TaAOX1c-6DL	N/A	N/A
regTaAOX-3B	N/A	N/A
put.TaAOX1e-3DS	N/A	N/A
TaAOX1d-2AL.1	N/A	N/A
TaAOX1d-2AL.2.sv1	Wildtype	Intron retention: Portion of exon 1 in wildtype is part of intron 1 in variant. Alternative 3'UTR site: Portion of exon2 in variant is downstream of the gene sequence of the wildtype.
TaAOX1d-2AL.2.sv2	Variant	Alternative 5'UTR site: part of the wildtype's 5'UTR is upstream of the gene sequence of the variant
TaAOX1d-2DL	N/A	N/A
put.TaAOX1d-like-4AS	N/A	N/A