Comparison of 5′ splice sites
| −3 | −2 | −1 | +1 | +2 | +3 | +4 | +5 | +6 | SS | ΔG | MAX | MDD | MM | NN | |||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| SS, Shapiro and Senapathy matrix; | |||||||||||||||||
| ΔG, RNA duplex stability with U1 snRNA. (Turner energy rules: www.bioinfo.rpi.edu/∼zukerm/rna/energy)15; | |||||||||||||||||
| MAX, Maximum entropy model; | |||||||||||||||||
| MDD, Maximum dependence decomposition model; | |||||||||||||||||
| MM, First order Markov model. (http://genes.mit.edu/burgelab/maxent/Xmaxentscan_scoreseq.html)16; | |||||||||||||||||
| NN, Neural network splice site prediction. (www.fruitfly.org/seq_tools/splice).17 | |||||||||||||||||
| Authentic IIIc | C | A | G | g | t | a | t | a | t | 75.39 | −8.8 | 7.88 | 11.58 | 7.24 | 0.88 | ||
| 1084+3A→G | C | A | G | g | t | g | t | a | t | 72.25 | −8.5 | 3.09 | 8.48 | 3.93 | 0.19 | ||
| Cryptic IIIc | C | G | G | g | t | a | a | t | t | 78.71 | −9.3 | 6.79 | 9.78 | 5.97 | 0.84 | ||
| Mutant cryptic IIIc | C | A | G | g | t | a | a | t | t | 86.21 | −9.7 | 8.55 | 13.08 | 7.72 | 0.87 | ||
| Authentic IIIb | A | A | G | g | t | a | a | c | a | 80.10 | −7.9 | 8.92 | 12.68 | 6.99 | 0.94 | ||
| U1 snRNA | 3′- | G | U | C | C | A | U | U | C | A | -5′ | ||||||