Order	SeqName	SeqType	IsAE	Lum_Epi	Lum_Epi2	Myo_Epi	Myo_Epi2	hESCs	StemLike	vHMECs
1	PKD1	Gene	0	66.96	142.37	122.09	149.81	39.66	56.56	88.49
2	262304	Transcript	0	0	0	0	0	0	0	0
3	306101	Transcript	0	4.09	6.73	7.74	7.93	2.28	2.93	5.59
4	382481	Transcript	0	0.91	0.07	0.48	0.08	0.41	0.59	0.64
5	ER1a	ExonRegion	0	20.16	30.04	20.58	36.34	6.61	14.78	6.42
6	E1a_E2a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
7	E1a_E3b	KnownJunction	1	203.73	168.77	224.95	244.42	88.75	129.63	49.43
8	I1	Intron	0	18.81	35.82	22.16	24.37	12.84	21.99	16.00
9	I1_SR1	SilentIntronRegion	0	19.87	38.85	23.43	23.80	13.52	21.16	15.52
10	I1_AR1	ActiveIntronRegion	0	19.89	36.70	26.33	34.38	13.54	31.00	19.61
11	I1_SR2	SilentIntronRegion	0	11.71	17.86	10.20	15.98	8.21	16.30	14.58
12	ER2a	ExonRegion	0	0.00	0.05	0.00	0.00	0.03	0.00	0.00
13	E2a_E3a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
14	ER3a	ExonRegion	0	9.65	7.67	11.69	8.17	2.69	4.97	6.59
15	E3_Ab	KnownBoundary	0	8.34	4.36	17.37	6.72	1.08	4.21	13.20
16	ER3b	ExonRegion	1	305.33	279.01	361.76	366.61	136.27	180.00	118.67
17	E3a_E4a	KnownJunction	1	508.01	453.79	578.28	538.08	221.01	265.18	186.42
18	E3a_E5a	NovelJunction	0	34.61	49.71	56.22	77.35	0.00	29.35	45.36
19	ER4a	ExonRegion	1	811.94	556.66	947.76	706.14	253.61	384.16	259.05
20	E4a_E5a	KnownJunction	1	865.57	623.21	1054.65	773.61	217.53	430.46	307.14
21	ER5a	ExonRegion	1	414.80	492.22	539.13	626.28	165.20	307.96	250.65
22	E5_Da	NovelBoundary	1	127.39	6.65	187.71	7.21	14.57	5.20	8.64
23	E5a_E6a	KnownJunction	0	496.51	514.66	682.04	682.21	154.32	293.32	352.52
24	E5a_E6b	KnownJunction	0	0.00	0.00	0.00	1.68	0.00	0.00	0.00
25	E6_Aa	NovelBoundary	1	15.59	30.11	31.79	40.37	24.27	29.45	57.04
26	ER6a	ExonRegion	0	150.56	342.47	254.10	423.26	73.11	184.82	185.33
27	E6_Ab	KnownBoundary	0	59.03	139.37	120.62	205.97	20.29	81.10	69.89
28	ER6b	ExonRegion	0	125.41	329.54	229.39	427.95	66.15	165.59	180.74
29	E6a_E7a	KnownJunction	0	189.50	336.48	308.85	436.28	59.11	149.44	145.32
30	E6a_E9a	NovelJunction	1	8.38	9.01	17.76	28.26	0.00	5.98	61.88
31	E6a_E10b	NovelJunction	1	0.00	3.15	5.07	9.24	0.00	10.40	23.07
32	E6a_E11a	NovelJunction	0	0.95	4.20	1.34	11.70	0.00	7.69	6.31
33	E6a_E12a	NovelJunction	0	1.89	6.12	2.08	9.97	0.00	10.34	5.32
34	ER7a	ExonRegion	0	118.95	333.09	199.06	402.08	81.59	143.91	106.99
35	E7a_E8a	KnownJunction	0	92.28	240.78	170.04	277.17	53.28	91.95	70.87
36	E7a_E9a	NovelJunction	0	16.26	50.81	55.73	94.82	2.01	25.03	27.49
37	E7a_E10b	NovelJunction	0	6.39	5.91	9.07	20.59	0.00	3.67	0.89
38	E8_Aa	NovelBoundary	1	12.20	12.06	34.70	16.85	12.56	4.21	7.93
39	ER8a	ExonRegion	0	109.04	249.30	159.91	246.90	65.02	99.67	74.30
40	E8a_E9a	KnownJunction	0	119.67	229.59	218.24	228.95	46.11	81.55	94.11
41	ER9a	ExonRegion	0	112.78	270.43	176.62	281.30	45.85	116.46	97.17
42	E9a_E10a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
43	E9a_E10b	KnownJunction	0	162.89	275.96	309.32	363.18	72.43	146.22	189.43
44	ER10a	ExonRegion	0	6.93	10.83	13.67	13.26	6.60	5.78	7.23
45	E10_Ab	KnownBoundary	0	8.73	12.93	20.98	17.37	6.29	5.68	9.49
46	ER10b	ExonRegion	0	143.12	278.85	268.38	361.42	73.81	157.55	180.94
47	E10a_E11a	KnownJunction	0	112.17	285.70	248.22	379.90	74.16	123.41	167.13
48	ER11a	ExonRegion	0	161.76	311.88	262.91	394.13	88.61	162.15	210.35
49	E11_Da	KnownBoundary	0	180.82	311.24	305.31	411.73	79.69	131.10	230.66
50	E11a_E12b	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
51	ER11b	ExonRegion	0	171.00	318.03	293.77	411.48	70.77	150.32	223.73
52	E11_Db	NovelBoundary	0	37.85	69.49	44.78	82.14	18.67	40.04	28.73
53	E11b_E12a	KnownJunction	0	159.16	299.57	258.82	361.64	69.76	143.86	212.65
54	E12_Aa	NovelBoundary	1	27.40	39.07	38.63	77.78	20.17	34.14	47.77
55	ER12a	ExonRegion	0	124.66	297.02	211.26	384.85	80.42	143.55	201.00
56	E12_Ab	KnownBoundary	0	137.36	265.37	254.27	379.74	50.21	126.52	222.17
57	ER12b	ExonRegion	0	232.49	320.61	297.44	418.17	103.50	147.09	266.46
58	E12_Da	NovelBoundary	0	12.20	6.96	23.68	9.27	26.60	6.27	10.29
59	E12a_E13a	KnownJunction	0	279.19	337.38	370.63	444.00	106.14	195.13	382.19
60	ER13a	ExonRegion	0	229.73	233.57	298.00	293.22	61.48	113.30	241.37
61	E13a_E14a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
62	ER14a	ExonRegion	0	80.04	119.15	124.52	101.84	29.21	37.63	102.97
63	E14a_E15a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
64	ER15a	ExonRegion	1	52.74	132.56	107.08	87.04	14.12	23.32	104.07
65	E15a_E16a	KnownJunction	1	75.17	169.42	142.27	136.97	34.19	25.89	166.20
66	ER16a	ExonRegion	0	58.52	126.79	105.09	87.30	44.09	26.00	109.23
67	E16_Da	KnownBoundary	0	34.35	56.67	69.97	54.78	8.11	14.93	64.15
68	E16a_E16b	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
69	ER16b	ExonRegion	1	35.87	65.70	60.08	51.54	11.30	10.55	75.71
70	E16_Ab	KnownBoundary	1	38.14	57.74	71.03	52.67	11.48	12.76	85.17
71	ER16c	ExonRegion	0	43.33	79.02	75.23	63.05	16.21	19.22	74.58
72	E16_Db	KnownBoundary	0	61.89	77.42	113.67	72.17	26.97	21.09	106.54
73	E16b_E16c	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
74	ER16d	ExonRegion	0	48.52	96.38	97.80	73.79	20.98	18.57	75.98
75	E16_Ac	KnownBoundary	0	36.18	73.30	93.03	46.87	12.33	18.65	62.56
76	ER16e	ExonRegion	0	31.51	68.23	84.67	52.60	15.48	22.29	57.72
77	E16_Dc	KnownBoundary	0	17.62	16.00	40.44	17.96	8.97	4.98	29.49
78	E16c_E16d	KnownJunction	0	22.03	36.78	47.28	36.36	0.00	17.15	38.19
79	E16_Ad	KnownBoundary	0	25.70	37.02	70.92	26.31	8.99	7.88	43.71
80	ER16f	ExonRegion	0	44.11	60.26	102.42	63.10	19.76	18.88	77.71
81	ER16g	ExonRegion	0	49.65	75.30	101.05	60.78	18.67	16.83	84.02
82	E16_Dd	KnownBoundary	1	69.93	62.71	105.38	60.90	19.36	10.45	86.72
83	E16d_E16e	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
84	ER16h	ExonRegion	0	61.35	70.39	96.58	48.87	16.06	14.11	68.18
85	E16_Ae	KnownBoundary	0	62.09	101.04	117.88	60.55	13.67	25.59	76.09
86	ER16i	ExonRegion	0	51.52	107.39	88.35	95.32	29.89	30.98	85.38
87	E16e_E17a	KnownJunction	0	101.24	139.21	158.40	170.13	70.54	43.63	112.83
88	E16e_E18a	NovelJunction	1	0.00	5.46	3.58	1.16	0.00	1.66	10.39
89	ER17a	ExonRegion	0	70.70	124.90	124.24	154.48	65.32	38.83	100.69
90	E17a_E18a	KnownJunction	1	82.72	155.03	147.11	88.99	43.25	26.69	143.59
91	ER18a	ExonRegion	0	42.32	135.42	88.26	102.68	31.20	32.40	107.85
92	E18a_E19a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
93	ER19a	ExonRegion	0	30.65	85.28	74.03	85.18	40.52	28.08	68.77
94	E19a_E20a	KnownJunction	0	52.81	113.99	152.37	126.00	62.54	41.14	135.39
95	ER20a	ExonRegion	0	39.05	99.24	86.28	106.48	34.52	20.06	68.40
96	E20a_E21a	KnownJunction	0	36.83	94.50	77.87	83.01	33.96	18.06	55.10
97	ER21a	ExonRegion	0	34.12	109.82	66.10	89.32	45.69	23.61	60.25
98	E21a_E22a	KnownJunction	0	20.08	41.19	34.86	36.11	28.08	13.99	47.68
99	E21a_E22b	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
100	ER22a	ExonRegion	0	24.28	77.21	51.09	56.09	21.60	20.99	46.26
101	E22_Ab	KnownBoundary	1	79.11	157.60	174.63	132.85	35.55	71.50	180.35
102	ER22b	ExonRegion	0	30.64	111.09	64.96	75.97	34.08	33.43	76.13
103	E22a_E23a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
104	ER23a	ExonRegion	0	33.62	112.60	82.57	105.36	47.16	36.91	84.28
105	E23a_E24a	KnownJunction	0	26.95	83.15	55.90	91.51	12.96	17.26	67.74
106	ER24a	ExonRegion	0	38.77	100.91	92.48	106.36	44.71	34.74	62.38
107	E24_Da	KnownBoundary	0	163.80	249.03	254.07	359.20	129.12	161.47	257.44
108	E24a_E24b	KnownJunction	0	1.95	0.00	0.76	0.00	0.00	1.66	0.89
109	ER24b	ExonRegion	0	28.81	100.09	89.47	87.48	35.47	32.44	59.03
110	E24_Ab	KnownBoundary	0	122.82	203.52	233.04	231.20	90.25	105.27	183.28
111	ER24c	ExonRegion	0	31.37	105.61	80.34	103.10	18.67	29.44	61.71
112	E24_Db	NovelBoundary	0	52.32	123.13	97.30	180.24	39.35	88.25	91.51
113	E24b_E25a	KnownJunction	0	29.93	111.26	65.82	83.77	19.46	31.95	48.12
114	ER25a	ExonRegion	0	29.62	103.74	84.86	87.60	25.44	31.31	53.04
115	E25a_E26a	KnownJunction	0	31.73	97.81	109.49	92.22	25.06	44.68	55.30
116	ER26a	ExonRegion	0	19.50	99.39	62.21	90.10	23.50	27.83	44.17
117	E26a_E27a	KnownJunction	0	28.79	81.81	63.37	70.22	24.00	18.44	48.11
118	E26a_E28a	NovelJunction	1	0.77	7.22	1.39	3.12	0.00	0.00	17.81
119	ER27a	ExonRegion	0	22.90	61.39	45.69	49.76	28.23	14.71	30.39
120	E27a_E28a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
121	ER28a	ExonRegion	0	27.10	84.37	56.48	81.88	21.86	17.02	52.36
122	E28a_E29a	KnownJunction	0	23.88	93.58	59.52	90.84	14.94	18.79	65.37
123	ER29a	ExonRegion	0	37.85	119.45	84.02	133.42	38.55	28.50	71.51
124	E29a_E30a	KnownJunction	0	27.57	119.54	87.92	121.40	30.89	31.38	59.69
125	ER30a	ExonRegion	0	34.20	117.89	91.92	114.69	29.86	32.42	60.25
126	E30a_E31a	KnownJunction	0	27.52	97.81	75.62	78.81	18.33	24.87	39.63
127	E30a_E32a	NovelJunction	1	1.60	2.76	0.70	1.11	1.18	2.36	12.12
128	ER31a	ExonRegion	0	48.88	103.87	118.31	96.76	33.53	30.24	59.39
129	E31_Da	NovelBoundary	1	19.61	0.00	52.49	3.17	0.00	0.00	0.00
130	E31a_E32a	KnownJunction	0	32.80	78.87	105.21	70.33	19.89	31.22	45.09
131	ER32a	ExonRegion	0	33.77	111.65	99.87	92.72	35.30	32.81	61.50
132	E32a_E33a	KnownJunction	0	31.41	116.25	103.34	99.45	41.26	23.29	58.89
133	E32a_E33b	KnownJunction	0	18.64	38.91	35.74	51.53	22.66	13.13	26.31
134	E33_Ab	NovelBoundary	1	54.09	63.73	97.62	135.94	9.73	62.12	57.67
135	ER33a	ExonRegion	0	36.69	114.50	108.55	86.35	41.91	28.20	61.39
136	ER33b	ExonRegion	0	49.89	134.48	148.25	104.26	52.11	27.97	73.06
137	E33a_E34a	KnownJunction	0	45.73	101.30	132.51	73.58	36.08	30.71	60.36
138	E33a_E35a	NovelJunction	1	1.03	2.86	3.89	1.68	0.00	1.15	12.22
139	ER34a	ExonRegion	0	35.98	111.25	92.52	91.01	37.44	34.55	59.43
140	E34a_E35a	KnownJunction	0	42.94	143.02	112.07	102.38	27.53	38.46	66.88
141	ER35a	ExonRegion	0	34.28	117.23	94.41	97.62	33.63	34.77	64.54
142	E35a_E36a	KnownJunction	0	25.40	99.94	69.74	91.57	21.25	35.21	47.94
143	ER36a	ExonRegion	0	16.91	92.36	49.85	75.45	19.58	26.67	34.97
144	E36_Da	KnownBoundary	0	1.90	0.00	0.85	0.00	3.25	0.00	4.66
145	E36a_E37a	KnownJunction	0	22.93	89.98	59.87	91.73	25.66	29.94	35.46
146	E36a_E38a	NovelJunction	1	0.00	1.34	0.00	1.63	0.00	0.00	14.60
147	ER36b	ExonRegion	0	0.77	0.20	0.68	0.23	1.22	0.11	1.02
148	E36b_E37b	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
149	ER37a	ExonRegion	0	22.49	74.60	60.93	87.26	28.79	26.89	38.93
150	E37_Ab	KnownBoundary	0	32.09	77.92	92.13	100.37	32.48	27.15	58.26
151	ER37b	ExonRegion	0	24.58	86.60	65.46	83.88	22.72	24.81	37.73
152	E37a_E38a	KnownJunction	0	41.74	103.51	123.01	98.21	25.31	23.50	52.11
153	ER38a	ExonRegion	0	43.62	112.41	110.12	116.32	33.23	30.94	71.08
154	E38_Da	NovelBoundary	1	15.49	22.51	28.07	19.10	9.84	7.64	31.39
155	E38a_E39a	KnownJunction	0	42.98	115.02	104.10	103.27	23.81	42.56	58.09
156	E38a_E40a	NovelJunction	0	3.76	8.59	9.18	8.15	3.27	2.89	11.08
157	E38a_E41a	NovelJunction	0	1.03	5.83	1.87	9.48	1.18	7.75	7.18
158	I38_AR1	ActiveIntronRegion	0	10.97	8.23	14.60	12.33	9.05	5.06	15.35
159	ER39a	ExonRegion	0	37.72	119.55	87.44	93.34	21.76	34.45	51.38
160	E39a_E40a	KnownJunction	0	28.84	103.19	71.03	79.67	13.21	18.47	41.69
161	E39a_E41a	NovelJunction	1	0.00	9.62	0.00	4.36	0.00	2.57	12.80
162	ER40a	ExonRegion	0	28.34	92.11	70.83	67.93	30.02	19.32	37.33
163	E40a_E41a	KnownJunction	0	17.96	104.19	47.58	67.73	24.18	23.05	29.74
164	ER41a	ExonRegion	0	22.20	92.65	63.73	82.18	24.18	26.90	50.20
165	E41a_E42a	KnownJunction	0	27.49	104.74	55.69	101.24	26.42	31.49	57.51
166	ER42a	ExonRegion	0	25.23	97.13	51.15	78.76	18.40	30.06	54.39
167	E42a_E43a	KnownJunction	1	18.34	89.59	39.42	71.98	10.05	38.94	52.07
168	ER43a	ExonRegion	0	17.24	76.48	24.53	66.69	12.56	25.60	39.64
169	E43a_E44a	KnownJunction	1	11.40	82.36	23.02	86.66	16.94	30.85	51.71
170	ER44a	ExonRegion	0	19.94	94.84	38.37	99.51	19.39	37.20	43.31
171	E44a_E45a	KnownJunction	1	28.39	147.88	105.21	165.34	30.52	64.24	78.84
172	ER45a	ExonRegion	0	40.20	166.61	121.36	171.69	37.58	53.16	85.14
173	E45a_E46a	KnownJunction	0	37.94	154.58	107.55	154.64	42.05	50.14	79.65
174	ER46a	ExonRegion	0	33.73	143.21	110.96	154.87	41.58	48.09	76.46
175	E46a_E47a	KnownJunction	0	49.77	163.17	122.35	156.75	43.89	55.13	82.03
176	ER47a	ExonRegion	0	46.79	140.69	125.45	131.01	44.12	64.40	70.35