| RNAinfo: | Splicing signals | Genefinding | Splice site consensus |
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Splice Site Matrices Splice site consensus sequences for U2 (major class) introns in pre-mRNA generally conform to the following consensus sequences: 3' Splice Sites -- human -- high GC isochores. From Zhang 1998. -15
-14
-13
-12
-11
-10
-9
-8
-7
-6
-5
-4
-3
-2
-1
1
2
A
10 8 7 8 6 6 4 8 8 7 6 19 2 100 0 21 19 C
41 42 41 40 38 43 42 46 49 54 45 38 82 0 0 13 21 G
15 14 14 13 13 12 13 14 10 8 8 26 0 0 100 58 29 T
34 36 38 39 43 39 41 32 33 31 41 17 16 0 0 8 31 3' Splice Sites -- human -- low GC isochores. From Zhang 1998 -15
-14
-13
-12
-11
-10
-9
-8
-7
-6
-5
-4
-3
-2
-1
1
2
A
15 14 13 11 10 10 11 12 13 11 10 26 7 100 0 26 24 C
24 21 20 22 21 22 25 28 28 25 22 25 55 0 0 11 15 G
10 12 10 9 10 9 10 10 8 5 5 15 1 0 100 50 20 T
51 53 57 58 59 59 54 50 51 59 63 33 37 0 0 13 41 3' Splice Sites -- Drosophila melanogaster -- From Mount et al. 1992. -14
-13
-12
-11
-10
-9
-8
-7
-6
-5
-4
-3
-2
-1
1
2
3
A
21 21 22 20 19 19 24 19 10 11 28 5 100 0 33 17 18 C
21 23 16 24 24 37 28 36 28 20 23 68 0 0 15 21 32 G
8 10 9 9 10 6 11 6 5 4 23 0 0 100 34 19 25 T
49 45 53 47 47 39 37 40 57 64 25 27 0 0 18 43 25 ################################################## 5' Splice Sites -- human -- high GC isochores. From Zhang 1998. -3
-2
-1
1
2
3
4
5
6
A
32 56 8 0 0 38 70 5 13 C
38 15 4 0 0 4 9 5 21 G
19 15 80 100 0 56 14 86 25 T
11 14 8 0 100 2 7 4 41 5' Splice Sites -- human -- low GC isochores. From Zhang 1998. -3
-2
-1
1
2
3
4
5
6
A
38 62 12 0 0 71 73 11 21 C
31 10 4 0 0 2 6 6 10 G
18 12 77 100 0 24 8 75 14 T
13 16 7 0 100 3 13 8 55 5' Splice Sites -- Drosophila melanogaster -- From Mount et al. 1992. -5
-4
-3
-2
-1
1
2
3
4
5
6
7
8
A
33 34 37 52 9 0 0 60 71 9 11 39 27 C
24 21 29 15 8 0 0 1 9 2 14 13 21 G
14 23 15 11 71 100 0 35 9 82 6 19 20 T
29 22 19 21 12 0 100 4 11 6 68 29 32 |