Order SeqName SeqType IsAE Lum_Epi Lum_Epi2 Myo_Epi Myo_Epi2 hESCs StemLike vHMECs 1 FLCN Gene 0 67.87 62.15 53.04 76.52 48.82 106.74 42.63 2 389171 Transcript 0 0.00 0.00 0.68 0.00 0.12 1.05 0.00 3 389169 Transcript 0 24.24 18.83 16.74 19.70 4.27 44.91 9.32 4 285071 Transcript 0 84.37 108.59 76.45 129.47 79.84 177.89 86.47 5 389168 Transcript 1 39.22 12.35 29.74 14.99 2.64 16.70 9.20 6 ER1a ExonRegion 0 0.00 0.00 0.68 0.00 0.12 1.05 0.00 7 ER1b ExonRegion 0 20.51 46.68 16.21 55.55 13.04 81.45 19.80 8 E1a_E2a KnownJunction 0 62.39 89.30 41.56 104.95 50.46 125.45 64.81 9 E1a_E3a NovelJunction 1 0.00 2.92 0.83 6.96 1.18 23.58 3.38 10 I1_AR1 ActiveIntronRegion 0 19.00 17.19 17.96 23.78 2.75 23.24 4.68 11 I1_SR2 SilentIntronRegion 0 13.14 10.04 17.22 12.62 1.81 12.85 2.75 12 I1_AR2 ActiveIntronRegion 0 9.43 7.38 14.83 10.18 1.78 7.78 4.01 13 ER2a ExonRegion 0 51.25 143.58 45.37 141.75 53.32 221.28 66.44 14 E2a_E3a KnownJunction 0 37.92 164.59 38.08 156.13 38.01 249.10 66.63 15 I2 Intron 0 17.24 13.42 9.46 9.83 3.41 7.30 5.47 16 I2_SR1 SilentIntronRegion 0 16.88 16.38 12.76 7.47 4.11 7.31 6.29 17 I2_AR1 ActiveIntronRegion 0 36.12 19.68 17.82 8.73 6.24 7.60 7.96 18 I2_AR2 ActiveIntronRegion 0 38.31 19.87 18.05 9.80 4.97 7.44 9.44 19 I2_AR3 ActiveIntronRegion 0 22.67 13.43 9.89 11.36 2.81 7.94 6.02 20 E3_Aa NovelBoundary 0 14.49 19.05 8.31 6.69 1.18 10.80 1.35 21 ER3a ExonRegion 0 38.16 158.34 42.79 168.83 44.08 267.69 80.69 22 E3_Da NovelBoundary 0 13.69 16.10 17.43 18.83 1.94 24.92 10.96 23 E3a_E4b KnownJunction 0 39.97 143.68 34.24 151.60 61.32 217.69 73.99 24 E3a_E9a NovelJunction 1 0.00 0.00 0.00 7.80 1.18 8.55 1.16 25 I3 Intron 0 40.99 13.14 34.34 12.80 2.72 17.91 8.04 26 I3_AR2 ActiveIntronRegion 0 14.51 9.44 13.58 16.35 1.95 12.97 5.19 27 I3_AR3 ActiveIntronRegion 0 20.80 9.52 24.90 13.73 2.41 14.81 6.49 28 I3_SR1 SilentIntronRegion 0 36.47 10.43 26.51 7.60 1.52 12.60 5.92 29 I3_AR4 ActiveIntronRegion 0 46.24 16.75 41.76 17.84 3.18 20.41 10.99 30 I3_SR2 SilentIntronRegion 1 89.41 17.90 65.58 7.62 5.61 36.01 9.62 31 E4_Aa NovelBoundary 1 68.36 11.72 51.26 16.85 0.00 18.57 13.67 32 ER4a ExonRegion 1 39.22 12.35 29.74 14.99 2.64 16.70 9.20 33 E4_Ab KnownBoundary 1 43.21 7.99 18.48 4.55 0.00 2.84 7.27 34 ER4b ExonRegion 0 80.66 133.41 66.57 144.81 60.57 213.59 82.43 35 E4a_E5a KnownJunction 0 46.51 75.11 43.08 113.78 37.35 152.97 48.87 36 E4a_E7a NovelJunction 1 0.87 0.00 0.89 0.00 0.00 13.80 0.89 37 ER5a ExonRegion 0 64.85 91.20 79.05 136.29 64.90 175.68 73.46 38 E5_Da KnownBoundary 1 14.12 14.50 14.27 11.51 4.22 4.72 4.01 39 E5a_E6a KnownJunction 0 39.04 67.91 51.37 66.08 51.78 95.54 59.60 40 E5a_E7a NovelJunction 0 2.97 4.12 1.70 6.61 3.53 12.86 3.55 41 E5a_E9a NovelJunction 0 0.75 8.41 0.68 9.51 2.33 11.12 0.63 42 ER5b ExonRegion 1 40.18 16.57 24.76 14.41 12.78 11.42 8.92 43 E5_Db NovelBoundary 1 63.56 31.81 38.57 36.19 8.16 23.45 11.11 44 I5 Intron 0 43.72 25.02 22.19 17.53 7.81 14.33 10.40 45 I5_AR1 ActiveIntronRegion 0 46.31 26.54 23.36 18.45 8.09 15.10 11.08 46 E6_Aa NovelBoundary 0 43.14 31.55 28.12 15.96 5.21 26.64 15.25 47 ER6a ExonRegion 0 123.95 122.83 88.04 144.09 89.57 193.71 99.09 48 E6_Da NovelBoundary 1 9.36 5.70 14.67 8.64 0.00 8.90 1.61 49 E6a_E7a KnownJunction 0 104.25 138.40 84.10 145.13 86.29 161.20 103.54 50 ER7a ExonRegion 0 107.12 132.31 89.84 161.60 91.63 173.72 108.45 51 E7a_E8a KnownJunction 0 85.05 108.11 82.17 164.80 82.83 163.37 98.10 52 ER8a ExonRegion 0 64.52 97.03 68.11 144.96 63.40 177.78 80.96 53 E8_Da KnownBoundary 1 24.63 15.13 11.22 18.18 6.34 69.55 6.21 54 E8a_E9a KnownJunction 0 46.06 91.16 59.91 110.97 57.31 114.17 71.44 55 ER8b ExonRegion 0 24.24 18.83 16.74 19.70 4.27 44.91 9.32 56 E8_Db NovelBoundary 0 22.88 9.98 23.15 11.81 6.18 25.70 8.28 57 I8 Intron 1 21.24 8.18 10.86 10.65 2.82 11.05 2.83 58 I8_AR1 ActiveIntronRegion 0 25.80 8.70 12.59 11.52 4.08 9.91 3.47 59 ER9a ExonRegion 0 57.58 111.39 62.22 142.82 56.68 177.42 69.83 60 E9a_E10a KnownJunction 0 90.91 106.45 102.68 142.91 72.27 227.91 115.31 61 I9 Intron 0 27.59 8.77 15.85 13.89 2.95 10.71 5.12 62 I9_SR1 SilentIntronRegion 0 27.01 6.28 11.14 11.56 2.76 11.14 3.23 63 I9_AR1 ActiveIntronRegion 0 27.75 10.39 19.48 16.36 3.19 12.28 6.20 64 I9_SR2 SilentIntronRegion 0 30.72 9.96 17.95 15.25 2.52 9.44 6.63 65 I9_AR2 ActiveIntronRegion 0 25.74 13.36 13.89 8.73 5.67 7.56 4.61 66 I9_SR3 SilentIntronRegion 0 22.42 7.65 11.49 7.87 3.36 4.04 3.82 67 E10_Aa NovelBoundary 0 23.77 12.85 10.95 12.90 4.50 15.22 5.65 68 ER10a ExonRegion 0 89.75 140.63 81.14 148.74 68.98 223.88 110.33 69 E10_Da NovelBoundary 0 15.49 9.54 14.38 10.21 1.89 12.41 4.73 70 E10a_E11a KnownJunction 0 59.53 111.44 66.43 100.48 71.49 163.32 92.72 71 E10a_E12a NovelJunction 1 6.41 12.64 3.91 55.97 5.67 75.47 6.66 72 ER11a ExonRegion 0 64.33 122.22 61.66 115.97 74.34 151.61 107.03 73 E11a_E12a KnownJunction 0 57.48 68.38 44.06 63.75 69.64 98.25 57.77 74 I11 Intron 0 16.45 11.95 11.05 15.24 2.67 10.13 5.61 75 I11_SR1 SilentIntronRegion 0 16.52 12.00 11.10 15.31 2.68 10.17 5.64 76 E12_Aa NovelBoundary 0 24.33 17.50 16.70 17.12 3.90 6.54 8.86 77 ER12a ExonRegion 0 83.31 100.55 67.41 137.79 78.36 144.21 69.20 78 E12_Da NovelBoundary 0 12.35 11.95 9.89 14.52 0.00 36.82 4.82 79 E12a_E13a KnownJunction 0 101.56 102.35 70.18 118.74 87.12 147.91 58.64 80 ER13a ExonRegion 0 110.13 123.41 92.00 159.13 101.78 215.21 97.33 81 E13a_E14a KnownJunction 0 130.20 130.52 115.74 182.16 106.67 271.86 121.62 82 E14_Aa NovelBoundary 0 14.54 10.72 7.49 11.49 5.92 30.52 4.63 83 ER14a ExonRegion 0 121.65 94.53 94.03 130.22 113.50 198.90 66.39 84 IG41_AR2 ActiveIntergenicRegion 0 3.93 3.56 6.52 10.11 0.16 6.08 5.31 85 IG41_SR1 SilentIntergenicRegion 0 1.74 3.36 2.29 9.20 0.36 4.13 4.97