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Table 3 Comparison of predicted clustered and non-clustered constitutive A-to-I sites

From: Prediction of constitutive A-to-I editing sites from human transcriptomes in the absence of genomic sequences

A
  A-to-I conversions A-to-Is in H9 and HeLa Numbers of validated sites
Clustered sites 2,245 296 22 of 22
Non-clustered sites 10,220 1,542 7 of 15
B
Predicted A-to-I sites Predicted A-to-I ratios Validation
Chr. location Altered base Gene location H9 HeLa H9 HeLa
chr1:40041484 A- > G (+) Coding 28.1% 29.5%
chr4:184186228 A- > G (+) Coding 30.8% 28.1%
chr6:159187882 A- > G (+) 3UTR 46.2% 50%
chr7:44841489 A- > G (+) 3UTR 78.4% 69.2% + +
chr8:48890109 A- > G (+) 3UTR 29.6% 32.5% + +
chr10:75008955 A- > G (−) 3UTR 59.5% 65.8% + +
chr17:4068050 A- > G (+) 3UTR 31.8% 31.7%
chr17:61898921 A- > G (−) Coding 27.5% 16.9% + +
chr17:80445942 A- > G (+) Coding 34.4% 32.1%
chr19:10755103 A- > G (−) 3UTR 95.3% 96.7%
chr19:34718735 A- > G (+) 3UTR 46.5% 27.9% + +
chr19:39874895 A- > G (+) 3UTR 36.1% 38.9%
chr20:30253695 A- > G (+) 3UTR 20.0% 29.9%
chrX:54589730 A- > G (+) 3UTR 30.0% 46.3% + +
chrX:54589774 A- > G (+) 3UTR 6.9% 8.8% + +
  1. (A) Comparison of clustered and non-clustered constitutive A-to-I sites identified with or without STEP4 cutoff. Editing sites detected in HeLa and H9 cells were further used for validation with Sanger sequencing. (B) Validation results of randomly selected non-clustered A-to-I editing sites. “+”, validated to be an editing site; “-”, validated not to be an editing site.