|
SOX9_m1 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
SOX9 |
1 |
1773 |
710 |
2287 |
1416 |
|
TF group |
HMG |
2 |
6186 |
1156 |
1398 |
1461 |
|
Polypeptide used |
DBD |
3 |
6186 |
1 |
38 |
486 |
|
Ligand sequence |
TCTCAA20NGA |
4 |
0 |
6186 |
87 |
247 |
|
Batch of SELEX experiment |
O |
5 |
6186 |
0 |
0 |
42 |
|
Seed sequence |
NAACAATRN |
6 |
6186 |
24 |
30 |
19 |
|
Hamming distance of sequences to seed |
1 |
7 |
541 |
82 |
94 |
6186 |
|
SELEX cycle |
4 |
8 |
2685 |
429 |
3501 |
857 |
|
Number of repeats |
monomeric |
9 |
1234 |
1410 |
2993 |
549 |
|
Comment |
|
|
|
|
|
|
|
Representative matrix |
yes |
|
|
|
|
|
|
Source: |
|
|
|
|
|
|
|
Jolma et al., Cell 152:327-339 (2013); PubMed 23332764 |
|
|
|
|
|
|
|
|
|
|
SOX9_d1 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
SOX9 |
1 |
242 |
0 |
0 |
0 |
|
TF group |
HMG |
2 |
242 |
0 |
4 |
0 |
|
Polypeptide used |
full |
3 |
0 |
242 |
0 |
0 |
|
Ligand sequence |
TGGGGT20NGGT |
4 |
242 |
0 |
0 |
0 |
|
Batch of SELEX experiment |
W |
5 |
242 |
0 |
0 |
0 |
|
Seed sequence |
AACAATRTKCAGWGTT |
6 |
0 |
0 |
0 |
242 |
|
Hamming distance of sequences to seed |
1 |
7 |
68 |
6 |
174 |
4 |
|
SELEX cycle |
3 |
8 |
0 |
0 |
0 |
242 |
|
Number of repeats |
dimeric |
9 |
3 |
8 |
193 |
49 |
|
Comment |
possible binding to single stranded DNA |
10 |
2 |
242 |
0 |
0 |
|
Representative matrix |
no |
11 |
242 |
0 |
0 |
0 |
|
|
|
12 |
0 |
0 |
242 |
2 |
|
|
|
13 |
0 |
0 |
0 |
242 |
|
|
|
14 |
2 |
0 |
242 |
0 |
|
Source: |
|
15 |
0 |
0 |
0 |
242 |
|
Jolma et al., Cell 152:327-339 (2013); PubMed 23332764 |
|
16 |
2 |
2 |
0 |
242 |
|
|
|
|
|
|
|
|
|
|
|
|
SOX9_d2 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
SOX9 |
1 |
174 |
0 |
0 |
0 |
|
TF group |
HMG |
2 |
0 |
0 |
0 |
174 |
|
Polypeptide used |
full |
3 |
0 |
174 |
0 |
0 |
|
Ligand sequence |
TGGGGT20NGGT |
4 |
174 |
0 |
0 |
0 |
|
Batch of SELEX experiment |
W |
5 |
174 |
0 |
0 |
0 |
|
Seed sequence |
ATCAATRTKCAGWGAT |
6 |
0 |
0 |
0 |
174 |
|
Hamming distance of sequences to seed |
1 |
7 |
55 |
2 |
119 |
1 |
|
SELEX cycle |
3 |
8 |
0 |
0 |
0 |
174 |
|
Number of repeats |
dimeric |
9 |
5 |
20 |
100 |
74 |
|
Comment |
possible binding to single stranded DNA |
10 |
0 |
174 |
0 |
2 |
|
Representative matrix |
yes |
11 |
174 |
2 |
0 |
0 |
|
|
|
12 |
0 |
0 |
174 |
2 |
|
|
|
13 |
0 |
0 |
0 |
174 |
|
|
|
14 |
0 |
4 |
174 |
0 |
|
Source: |
|
15 |
174 |
0 |
0 |
0 |
|
Jolma et al., Cell 152:327-339 (2013); PubMed 23332764 |
|
16 |
2 |
2 |
0 |
174 |
|
|
|
|
|
|
|
|
|
|
|
|
SOX9_d3 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
SOX9 |
1 |
554 |
0 |
2 |
0 |
|
TF group |
HMG |
2 |
0 |
0 |
0 |
554 |
|
Polypeptide used |
full |
3 |
0 |
4 |
554 |
0 |
|
Ligand sequence |
TGGGGT20NGGT |
4 |
554 |
0 |
0 |
0 |
|
Batch of SELEX experiment |
W |
5 |
554 |
0 |
0 |
0 |
|
Seed sequence |
ATGAATRTKCAGWCAT |
6 |
0 |
0 |
0 |
554 |
|
Hamming distance of sequences to seed |
1 |
7 |
166 |
7 |
388 |
20 |
|
SELEX cycle |
3 |
8 |
4 |
0 |
0 |
554 |
|
Number of repeats |
dimeric |
9 |
53 |
31 |
329 |
225 |
|
Comment |
possible binding to single stranded DNA |
10 |
2 |
554 |
0 |
0 |
|
Representative matrix |
yes |
11 |
554 |
0 |
2 |
2 |
|
|
|
12 |
0 |
0 |
554 |
2 |
|
|
|
13 |
0 |
0 |
0 |
554 |
|
|
|
14 |
0 |
554 |
0 |
0 |
|
Source: |
|
15 |
554 |
0 |
0 |
0 |
|
Jolma et al., Cell 152:327-339 (2013); PubMed 23332764 |
|
16 |
5 |
0 |
0 |
554 |
|
|
|
|
|
|
|
|
|
|
|
|
SOX9_d4 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
SOX9 |
1 |
2434 |
269 |
1137 |
648 |
|
TF group |
HMG |
2 |
4487 |
4 |
0 |
1 |
|
Polypeptide used |
full |
3 |
4487 |
0 |
9 |
0 |
|
Ligand sequence |
TGGGGT20NGGT |
4 |
2 |
4487 |
0 |
0 |
|
Batch of SELEX experiment |
W |
5 |
4487 |
0 |
0 |
0 |
|
Seed sequence |
NAACAATKNYAGTGTTN |
6 |
4487 |
0 |
9 |
1 |
|
Hamming distance of sequences to seed |
1 |
7 |
0 |
2 |
0 |
4487 |
|
SELEX cycle |
3 |
8 |
0 |
4 |
898 |
3589 |
|
Number of repeats |
dimeric |
9 |
611 |
250 |
2105 |
1521 |
|
Comment |
possible binding to single stranded DNA |
10 |
2 |
3656 |
0 |
831 |
|
Representative matrix |
no |
11 |
4487 |
6 |
6 |
0 |
|
|
|
12 |
0 |
0 |
4487 |
43 |
|
|
|
13 |
1 |
4 |
0 |
4487 |
|
|
|
14 |
0 |
0 |
4487 |
0 |
|
|
|
15 |
3 |
0 |
4 |
4487 |
|
Source: |
|
16 |
16 |
34 |
9 |
4487 |
|
Jolma et al., Cell 152:327-339 (2013); PubMed 23332764 |
|
17 |
832 |
1074 |
416 |
2165 |
|
|
|
|
|
|
|
|
|
|
|
|
SOX9_d5 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
SOX9 |
1 |
1238 |
404 |
341 |
587 |
|
TF group |
HMG |
2 |
2570 |
2 |
0 |
0 |
|
Polypeptide used |
full |
3 |
3 |
1 |
0 |
2570 |
|
Ligand sequence |
TGGGGT20NGGT |
4 |
0 |
2570 |
0 |
0 |
|
Batch of SELEX experiment |
W |
5 |
2570 |
0 |
0 |
0 |
|
Seed sequence |
NATCAATKNYAGTGATN |
6 |
2570 |
0 |
2 |
0 |
|
Hamming distance of sequences to seed |
1 |
7 |
0 |
0 |
0 |
2570 |
|
SELEX cycle |
3 |
8 |
0 |
0 |
799 |
1771 |
|
Number of repeats |
dimeric |
9 |
274 |
225 |
1032 |
1039 |
|
Comment |
possible binding to single stranded DNA |
10 |
0 |
1823 |
0 |
747 |
|
Representative matrix |
no |
11 |
2570 |
2 |
4 |
0 |
|
|
|
12 |
0 |
0 |
2570 |
33 |
|
|
|
13 |
0 |
0 |
4 |
2570 |
|
|
|
14 |
0 |
0 |
2570 |
0 |
|
|
|
15 |
2570 |
0 |
0 |
0 |
|
Source: |
|
16 |
22 |
2 |
7 |
2570 |
|
Jolma et al., Cell 152:327-339 (2013); PubMed 23332764 |
|
17 |
722 |
323 |
420 |
1105 |
|
|
|
|
|
|
|
|
|
|
|
|
SOX9_d6 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
SOX9 |
1 |
2735 |
1285 |
1411 |
990 |
|
TF group |
HMG |
2 |
6421 |
0 |
0 |
4 |
|
Polypeptide used |
full |
3 |
0 |
6 |
0 |
6421 |
|
Ligand sequence |
TGGGGT20NGGT |
4 |
26 |
0 |
6421 |
0 |
|
Batch of SELEX experiment |
W |
5 |
6421 |
1 |
0 |
0 |
|
Seed sequence |
NATGAATKNYAGTCATN |
6 |
6421 |
2 |
15 |
0 |
|
Hamming distance of sequences to seed |
1 |
7 |
2 |
4 |
0 |
6421 |
|
SELEX cycle |
3 |
8 |
2 |
2 |
1317 |
5104 |
|
Number of repeats |
dimeric |
9 |
738 |
362 |
3145 |
2175 |
|
Comment |
possible binding to single stranded DNA |
10 |
0 |
5181 |
2 |
1240 |
|
Representative
matrix |
no |
11 |
6421 |
4 |
6 |
0 |
|
|
|
12 |
2 |
0 |
6421 |
112 |
|
|
|
13 |
4 |
0 |
0 |
6421 |
|
|
|
14 |
2 |
6421 |
0 |
4 |
|
|
|
15 |
6421 |
0 |
4 |
0 |
|
Source: |
|
16 |
24 |
4 |
12 |
6421 |
|
Jolma et al., Cell 152:327-339 (2013); PubMed 23332764 |
|
17 |
1348 |
1251 |
1315 |
2508 |
|
|
|