|
RARA_1 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
RARA |
1 |
469 |
69 |
142 |
90 |
|
TF group |
nuclearreceptor |
2 |
460 |
15 |
173 |
23 |
|
Polypeptide used |
DBD |
3 |
543 |
5 |
107 |
1 |
|
Ligand sequence |
TAAAAT20NTA |
4 |
0 |
2 |
635 |
0 |
|
Batch of SELEX experiment |
Q |
5 |
0 |
3 |
628 |
44 |
|
Seed sequence |
ARRGGTCANNNRRGGTCA |
6 |
4 |
5 |
18 |
496 |
|
Hamming distance of sequences to seed |
2 |
7 |
8 |
962 |
4 |
16 |
|
SELEX cycle |
3 |
8 |
656 |
1 |
17 |
2 |
|
Number of repeats |
dimeric |
9 |
138 |
62 |
24 |
334 |
|
Comment |
|
10 |
64 |
102 |
153 |
280 |
|
Representative matrix |
yes |
11 |
153 |
78 |
27 |
310 |
|
|
|
12 |
301 |
92 |
302 |
17 |
|
|
|
13 |
384 |
14 |
270 |
1 |
|
|
|
14 |
1 |
1 |
612 |
0 |
|
|
|
15 |
0 |
2 |
557 |
91 |
|
|
|
16 |
9 |
2 |
9 |
497 |
|
Source: |
|
17 |
7 |
934 |
14 |
8 |
|
Jolma et al., Cell 152:327-339 (2013); PubMed 23332764 |
|
18 |
719 |
5 |
24 |
2 |
|
|
|
|
|
|
|
|
|
|
|
|
RARA_2 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
RARA |
1 |
250 |
1 |
513 |
4 |
|
TF group |
nuclearreceptor |
2 |
507 |
1 |
35 |
0 |
|
Polypeptide used |
DBD |
3 |
0 |
0 |
745 |
0 |
|
Ligand sequence |
TAAAAT20NTA |
4 |
1 |
0 |
746 |
19 |
|
Batch of SELEX experiment |
Q |
5 |
0 |
5 |
1 |
559 |
|
Seed sequence |
RAGGTCAAAAGGTCAAKN |
6 |
2 |
707 |
26 |
0 |
|
Hamming distance of sequences to seed |
2 |
7 |
528 |
0 |
4 |
0 |
|
SELEX cycle |
3 |
8 |
526 |
0 |
28 |
162 |
|
Number of repeats |
dimeric |
9 |
526 |
0 |
3 |
37 |
|
Comment |
|
10 |
522 |
5 |
4 |
0 |
|
Representative matrix |
yes |
11 |
0 |
0 |
759 |
1 |
|
|
|
12 |
0 |
0 |
754 |
101 |
|
|
|
13 |
3 |
0 |
0 |
546 |
|
|
|
14 |
0 |
705 |
0 |
2 |
|
|
|
15 |
540 |
0 |
1 |
0 |
|
|
|
16 |
539 |
36 |
30 |
181 |
|
Source: |
|
17 |
2 |
0 |
228 |
328 |
|
Jolma et al., Cell 152:327-339 (2013); PubMed 23332764 |
|
18 |
0 |
115 |
226 |
212 |
|
|
|
|
|
|
|
|
|
|
|
|
RARA_3 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
RARA |
1 |
1089 |
24 |
313 |
0 |
|
TF group |
nuclearreceptor |
2 |
0 |
0 |
1488 |
2 |
|
Polypeptide used |
DBD |
3 |
0 |
2 |
1451 |
71 |
|
Ligand sequence |
TAAAAT20NTA |
4 |
6 |
11 |
17 |
1143 |
|
Batch of SELEX experiment |
Q |
5 |
10 |
1980 |
9 |
21 |
|
Seed sequence |
RGGTCANNNARRGGTCA |
6 |
1391 |
16 |
11 |
2 |
|
Hamming distance of sequences to seed |
2 |
7 |
301 |
397 |
84 |
581 |
|
SELEX cycle |
3 |
8 |
213 |
432 |
584 |
223 |
|
Number of repeats |
dimeric |
9 |
147 |
677 |
157 |
502 |
|
Comment |
|
10 |
972 |
118 |
198 |
228 |
|
Representative matrix |
yes |
11 |
1015 |
17 |
348 |
7 |
|
|
|
12 |
1126 |
16 |
269 |
1 |
|
|
|
13 |
2 |
0 |
1455 |
4 |
|
|
|
14 |
1 |
7 |
1440 |
35 |
|
|
|
15 |
8 |
11 |
13 |
1131 |
|
Source: |
|
16 |
4 |
1923 |
26 |
22 |
|
Jolma et al., Cell 152:327-339 (2013); PubMed 23332764 |
|
17 |
1486 |
3 |
25 |
10 |
|
|
|
|
|
|
|
|
|
|
|
|
RARA_4 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
RARA |
1 |
3009 |
249 |
574 |
204 |
|
TF group |
nuclearreceptor |
2 |
1216 |
24 |
1401 |
0 |
|
Polypeptide used |
full |
3 |
2 |
1 |
2998 |
1 |
|
Ligand sequence |
TATAGA20NCG |
4 |
5 |
0 |
2729 |
430 |
|
Batch of SELEX experiment |
AD |
5 |
147 |
27 |
49 |
2924 |
|
Seed sequence |
ARGGTCAAAAGGTCA |
6 |
9 |
4075 |
20 |
48 |
|
Hamming distance of sequences to seed |
2 |
7 |
3548 |
0 |
92 |
1 |
|
SELEX cycle |
3 |
8 |
3382 |
20 |
70 |
316 |
|
Number of repeats |
dimeric |
9 |
3525 |
25 |
19 |
574 |
|
Comment |
|
10 |
3297 |
5 |
522 |
0 |
|
Representative matrix |
no |
11 |
2 |
0 |
2940 |
1 |
|
|
|
12 |
0 |
2 |
2812 |
893 |
|
|
|
13 |
21 |
13 |
16 |
3106 |
|
Source: |
|
14 |
2 |
4029 |
5 |
111 |
|
Jolma et al., Cell 152:327-339 (2013); PubMed 23332764 |
|
15 |
3495 |
3 |
1 |
1 |
|
|
|
|
|
|
|
|
|
|
|
|
RARA_5 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
RARA |
1 |
2187 |
495 |
321 |
691 |
|
TF group |
nuclearreceptor |
2 |
1769 |
471 |
1038 |
38 |
|
Polypeptide used |
full |
3 |
1703 |
23 |
1073 |
1 |
|
Ligand sequence |
TATAGA20NCG |
4 |
0 |
1 |
2128 |
3 |
|
Batch of SELEX experiment |
AD |
5 |
1 |
0 |
2092 |
31 |
|
Seed sequence |
ARRGGTCANNNRRGGTCA |
6 |
0 |
25 |
13 |
2448 |
|
Hamming distance of sequences to seed |
2 |
7 |
7 |
3823 |
6 |
12 |
|
SELEX cycle |
3 |
8 |
3120 |
5 |
18 |
0 |
|
Number of repeats |
dimeric |
9 |
876 |
632 |
115 |
1154 |
|
Comment |
|
10 |
233 |
749 |
1429 |
172 |
|
Representative matrix |
no |
11 |
402 |
693 |
327 |
1197 |
|
|
|
12 |
691 |
52 |
1408 |
64 |
|
|
|
13 |
2036 |
49 |
709 |
0 |
|
|
|
14 |
1 |
1 |
2084 |
2 |
|
|
|
15 |
1 |
2 |
2084 |
55 |
|
|
|
16 |
13 |
10 |
47 |
2412 |
|
Source: |
|
17 |
2 |
3826 |
2 |
16 |
|
Jolma et al., Cell 152:327-339 (2013); PubMed 23332764 |
|
18 |
2990 |
7 |
72 |
0 |
|
|
|
|
|
|
|
|
|
|
|
|
RARA_6 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
RARA |
1 |
4701 |
39 |
800 |
5 |
|
TF group |
nuclearreceptor |
2 |
1 |
4 |
4339 |
4 |
|
Polypeptide used |
full |
3 |
0 |
2 |
4008 |
461 |
|
Ligand sequence |
TATAGA20NCG |
4 |
18 |
20 |
55 |
4881 |
|
Batch of SELEX experiment |
AD |
5 |
8 |
7169 |
71 |
23 |
|
Seed sequence |
RGGTCANNNARRGGTCA |
6 |
5979 |
7 |
52 |
0 |
|
Hamming distance of sequences to seed |
2 |
7 |
3316 |
605 |
480 |
1102 |
|
SELEX cycle |
3 |
8 |
806 |
1707 |
1685 |
662 |
|
Number of repeats |
dimeric |
9 |
658 |
1247 |
1086 |
1736 |
|
Comment |
|
10 |
4267 |
343 |
379 |
924 |
|
Representative matrix |
no |
11 |
2890 |
110 |
2448 |
52 |
|
|
|
12 |
4784 |
27 |
834 |
0 |
|
|
|
13 |
2 |
1 |
4252 |
0 |
|
|
|
14 |
2 |
7 |
4259 |
69 |
|
|
|
15 |
21 |
62 |
29 |
4849 |
|
Source: |
|
16 |
63 |
7209 |
18 |
31 |
|
Jolma et al., Cell 152:327-339 (2013); PubMed 23332764 |
|
17 |
5808 |
8 |
29 |
2 |
|
|
|
|
|
|
|
|
|
|
|
|
Rara_7 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
Rara |
1 |
145 |
28 |
9 |
17 |
|
TF group |
nuclearreceptor |
2 |
134 |
3 |
40 |
3 |
|
Polypeptide used |
DBD |
3 |
161 |
2 |
23 |
0 |
|
Ligand sequence |
TCGGTT20NCG |
4 |
1 |
0 |
236 |
0 |
|
Batch of SELEX experiment |
P |
5 |
0 |
0 |
230 |
9 |
|
Seed sequence |
ARRGGTCANNNRRGGTCA |
6 |
0 |
0 |
3 |
203 |
|
Hamming distance of sequences to seed |
2 |
7 |
0 |
193 |
0 |
3 |
|
SELEX cycle |
4 |
8 |
195 |
1 |
3 |
1 |
|
Number of repeats |
dimeric |
9 |
68 |
52 |
12 |
60 |
|
Comment |
|
10 |
23 |
58 |
82 |
43 |
|
Representative matrix |
no |
11 |
83 |
38 |
74 |
17 |
|
|
|
12 |
71 |
3 |
129 |
5 |
|
|
|
13 |
141 |
1 |
38 |
0 |
|
|
|
14 |
1 |
0 |
219 |
0 |
|
|
|
15 |
1 |
0 |
202 |
12 |
|
|
|
16 |
1 |
0 |
4 |
189 |
|
Source: |
|
17 |
0 |
207 |
4 |
1 |
|
Jolma et
al., Cell 152:327-339 (2013); PubMed 23332764 |
|
18 |
177 |
1 |
0 |
0 |
|
|
|
|
|
|
|
|
|
|
|
|
Rara_8 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
Rara |
1 |
237 |
0 |
30 |
1 |
|
TF group |
nuclearreceptor |
2 |
2 |
2 |
236 |
2 |
|
Polypeptide used |
DBD |
3 |
1 |
3 |
206 |
47 |
|
Ligand sequence |
TCGGTT20NCG |
4 |
1 |
1 |
7 |
252 |
|
Batch of SELEX experiment |
P |
5 |
0 |
354 |
2 |
3 |
|
Seed sequence |
RGGTCANNNARRGGTCA |
6 |
314 |
0 |
0 |
1 |
|
Hamming distance of sequences to seed |
2 |
7 |
81 |
138 |
17 |
49 |
|
SELEX cycle |
4 |
8 |
37 |
73 |
72 |
83 |
|
Number of repeats |
dimeric |
9 |
60 |
107 |
18 |
93 |
|
Comment |
|
10 |
222 |
15 |
18 |
46 |
|
Representative matrix |
no |
11 |
213 |
3 |
57 |
4 |
|
|
|
12 |
252 |
3 |
25 |
0 |
|
|
|
13 |
0 |
1 |
221 |
0 |
|
|
|
14 |
0 |
1 |
193 |
30 |
|
|
|
15 |
0 |
1 |
0 |
234 |
|
Source: |
|
16 |
1 |
387 |
0 |
3 |
|
Jolma et al., Cell 152:327-339 (2013); PubMed 23332764 |
|
17 |
281 |
0 |
5 |
0 |
|
|
|
|
|
|
|
|
|
|
|
|
Rara_9 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
Rara |
1 |
602 |
43 |
394 |
24 |
|
TF group |
nuclearreceptor |
2 |
830 |
7 |
152 |
0 |
|
Polypeptide used |
DBD |
3 |
0 |
0 |
1231 |
2 |
|
Ligand sequence |
TCGGTT20NCG |
4 |
1 |
0 |
1131 |
97 |
|
Batch of SELEX experiment |
P |
5 |
4 |
4 |
7 |
1070 |
|
Seed sequence |
RRGGTCAAAAGGTCA |
6 |
0 |
1071 |
6 |
3 |
|
Hamming distance of sequences to seed |
2 |
7 |
1047 |
0 |
3 |
1 |
|
SELEX cycle |
4 |
8 |
1041 |
3 |
5 |
20 |
|
Number of repeats |
dimeric |
9 |
998 |
1 |
51 |
35 |
|
Comment |
|
10 |
996 |
2 |
65 |
1 |
|
Representative
matrix |
no |
11 |
1 |
0 |
1156 |
0 |
|
|
|
12 |
0 |
1 |
1016 |
176 |
|
|
|
13 |
1 |
3 |
15 |
1007 |
|
Source: |
|
14 |
1 |
1103 |
7 |
7 |
|
Jolma et
al., Cell 152:327-339 (2013); PubMed 23332764 |
|
15 |
1010 |
0 |
0 |
2 |
|
|
|