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. 2013 Feb 25;8(2):e57506. doi: 10.1371/journal.pone.0057506

Table 4. Results from four different bioinformatic programs used to predict the effect on the splicing process.

Sequence variants Type ofsplicesite NetGene2 HSF NNSplice Splice View Score
c.6_9dup (p.L4DfsX39) MYO7A [14] Acceptor Score for acceptor siteincreases from 77 to 82 The WT consensus sequenceis not recognized One donor site is not recognized New acceptor sites are created and other acceptor sites are not recognized 3
c.470G>A (p.S157N) MYO7A [14] Donor Score for the main donorsite decreases from 93 to 60 Score for donor site decreasesand a new acceptor site iscreated The main donor site isnot recognized The main donor site isnot recognized 4
c.640G>A (p.G214R) MYO7A [22] Acceptor Neutral The WT consensus sequenceis not recognized A new acceptor site is created Neutral 1
c.721C>G (p.R241G) MYO7A [15] Donor Three new donor siteare created A new acceptor siteis created Score for the main acceptor site decreases from 81 to 59 A new donor site is created 4
c.1097T>C (p.L366P) MYO7A [15] Acceptor Score for the main acceptorsite decreases from 83 to 77 Score for the acceptorsite decreases A new acceptor site is created Neutral 3
c.1342_1343delAG (p.S448LfsX2) MYO7A [14] Donor The main donor site is notrecognized The main donor site and theacceptor site arenot recognized The main donor site isnot recognized The main donor site isnot recognized 4
c.3508G>A (p.E1170K) MYO7A [23] Acceptor Score for the main acceptorsite decreases from 85 to 77 Neutral Neutral Neutral 1
c.3652G>A (p.G1218R) MYO7A [15] Acceptor A new acceptor siteis created A new acceptor siteis created A new acceptor site is created A new acceptor site is created 4
c.5581C>T (p.R1861X) MYO7A [22] Acceptor Score for the main acceptorsite decreases from 77 to 72 Neutral Neutral Neutral 1
c.1086-12G>A USH1C [17] Acceptor A new acceptor siteis created Score for acceptor sitedecreases Score for the main acceptor site decreases from 48 to 45 The main acceptor site isnot recognized 4
c.2289+1G>A CDH23 [24] Donor The main donor site isnot recognized The main donor site is notrecognized The main donor site isnot recognized The main donor site isnot recognized 4
c.6049G>A (p.G2017S) CDH23 [25] Donor Neutral The main donor site is notrecognized The main donor site isnot recognized Score for the maindonor site decreasesfrom 89 to 84 3
c.8722+1delG CDH23 [16] Donor Neutral The main donor site is notrecognized The main donor site isnot recognized The main donor site isnot recognized 3
c.521A>G (p.N174S) PCDH15 [18] Acceptor Score for the main acceptorsite decreases from 92 to 87 The main acceptor site isnot recognized Neutral Neutral 2
c.1304_1305insC (p.T436YfsX12) PCDH15 [18] Donor Score for the main donorsite decreases from 63 to 51 The WT consensus sequenceis not recognized Score for the maindonor site decreasesfrom 99 to 94 Score for the main donor site decreases from 81 to 79 3
c.1737C>G (p.Y579X) PCDH15 [18] Donor Score for the main donorsite decreases from 52 to 37 The main donor siteis not recognized Neutral Neutral 2
c.2868+5G>A PCDH15 [18] Donor The main donor site is notrecognized and a newdonor site is created The main donor siteis not recognized. The main donor site isnot recognized. The main donor site isnot recognized. 4
c.3717+2dupTT PCDH15 Present study Donor The main donor site isnot recognized The main donor siteis not recognized The main donor site isnot recognized The main donor site isnot recognized 4