Table 2.

Possible functional substitutions between G. nipponicus and G. aculeatus alleles within the introgression site IS1

Gene postion1	Gene name	Transcript ID	Amino acid change [PROVEAN Score2]
1,175,845	Transglutaminase 8	ENSGACT00000004923	V526A [1.373]
1,200,852	Filamin B, like	ENSGACT00000004976	D148E [−2.963 *], A938P [6.973 **], N1851S [1.58]
		ENSGACT00000004983	K1879E [−2.084], G2464A [3.165 *]
1,235,360	Sarcolemma‐associated protein a	ENSGACT00000005008	N813S [−1.396]
1,281,299	Kelch‐like family member 10 [2/5]	ENSGACT00000005082	D178E [2.7 *], R415P [−1.733], T505I [−1.647]
		ENSGACT00000005084	K229Q [−1.76], Q479H [−2.241]
1,343,836	Coiled‐coil domain‐containing 66	ENSGACT00000005108	L189R [−4.579 **]
1,355,299	Inositol hexakisphosphate kinase 1	ENSGACT00000005112	P375R [−1.362]
1,439,329	Potassium channel tetramerisation domain‐containing 6a	ENSGACT00000005237	S4C [−1.661]
1,465,445	Stabilin 1 [1/2]	ENSGACT00000005255	Q577K [1.418], K760R [2.164]
1,482,835	Stabilin 1 [2/2]	ENSGACT00000005273	S380L [−2.495], T494P [1.338]
1,499,288	Nischarin	ENSGACT00000005292	S298G [−3.199 *], I569N [−1.335], C1080R [1.605]
1,563,301	Asporin (LRR class 1)	ENSGACT00000005358	P18H [1.458]
1,578,802	Osteoglycin	ENSGACT00000005363	L211M [−1.745]
1,593,763	Nucleolar protein 8	ENSGACT00000005381	E308G [−6.398 **]

Genes with absolute values of PROVEAN scores > 1.3 are listed here. ¹Median position of genes, ²amino acid changes are shown by the amino acid in G. aculeatus, amino acid position, and the amino acid in G. nipponicus. Positive and negative PROVEAN scores indicate that functional mutation occurred in G. aculeatus and G. nipponicus, respectively. *PROVEAN scores > 2.5 or < −2.5. **PROVEAN scores > 4.1 or < −4.1. Bold letters indicate PROVEAN scores whose absolute values are larger than 2.5.