Table 2.

Types of ATS units

Types of ATS units	Codes^a	Total	In ORF	Complementary %
Acceptor-middle	01	3604	3239	42
Accepter-conventional	010	8114	7264	35
Acceptor-next-middle^b	0101	212	183	32
Acceptor-multiple	01010, 010101,...	1871	1735	34
Acceptor-switch-middle^b	0102	198	182	52
Acceptor-switch-conventional	01020	295	247	48
Acceptor-switch-multiple^b	010102, 0102020,...	208	188	54
Acceptor-break	01T, 0101T, 010201T,...	2878	2447	79
Donor-middle	1	1357	1085	91
Donor-conventional	10	3339	2715	48
Donor-next-middle^b	101	293	270	28
Donor-multiple^b	1010, 10101, 101010,...	419	361	30
Donor-switch-middle^b	102	181	168	45
Donor-switch-conventional^b	1020	196	148	57
Donor-switch-multiple^b	10102, 102020,...	155	139	45
Donor-break	1T, 101T, 10201T,...	715	551	78
Start-middle^b	S1	358	224	77
Start-conventional	S10	4117	2961	72
Start-next-middle^b	S101	85	52	66
Start-multiple^b	S1010, 10101, 101010,...	450	327	65
Start-switch-middle^b	S102	86	59	86
Start-switch-conventional^b	S1020	167	124	72
Start-switch-multiple^b	S10102, S102020,...	94	70	63
Total		29,392	24,739

↵a Complementary codes (data not shown) can be generated by replacing 1 by 2 and 2 by 1. Complementary patterns always start with additional alternative exons (e.g., inserted exon, alternative first exon within an intron of the main transcript).
↵b New types of ATS units.

Genome-wide assembly and analysis of alternative transcripts in mouse