Table 19 |
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|
AGRIS Lookup |
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|
3'UTRs |
5'UTRs |
Intron |
Core Promoters |
Proximal Promoters |
Distal Promoters |
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|
Regulatory Element from AGRIS database [25] |
Rank |
Score |
Rank |
Score |
Rank |
Score |
Rank |
Score |
Rank |
Score |
Rank |
Score |
|
|
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|
Bellringer/replumless/pennywise BS3 IN AG |
- |
- |
- |
- |
43503 |
0.0479784 |
- |
- |
64618 |
0.955909 |
56341 |
-103.557 |
|
|
||||||||||||
|
CBF1 BS in cor15a |
- |
- |
- |
- |
48346 |
-1.48116 |
- |
- |
4852 |
1.34988 |
11624 |
24.1708 |
|
|
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|
Octamer promoter motif |
- |
- |
- |
- |
41435 |
0.673899 |
- |
- |
11935 |
1.28979 |
23858 |
4.69741 |
|
|
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|
Bellringer/replumless/pennywise BS1 IN AG |
72 |
67.6311 |
352 |
35.2087 |
574 |
127.468 |
19 |
117.144 |
875 |
1.0759 |
58337 |
-186.12 |
|
|
||||||||||||
|
ABRE-like binding site motif |
5445 |
11.7462 |
1138 |
21.7556 |
15242 |
16.0488 |
304 |
41.9698 |
53 |
1.45099 |
109 |
255.929 |
|
|
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|
G-box promoter motif |
1852 |
21.1577 |
1138 |
21.7556 |
12023 |
20.8282 |
304 |
41.9698 |
53 |
1.45099 |
102 |
260.604 |
|
|
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|
DPBF1&2 binding site motif |
3720 |
14.7278 |
2963 |
13.7441 |
3460 |
54.8094 |
355 |
39.8827 |
137 |
1.36496 |
102 |
260.604 |
|
|
||||||||||||
|
MYB1 binding site motif |
4306 |
13.6223 |
446 |
32.0594 |
1407 |
86.7638 |
400 |
38.3647 |
1785 |
1.11027 |
2557 |
76.5745 |
|
|
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|
RAV1-A binding site motif |
568 |
34.0603 |
148 |
49.0095 |
2000 |
73.6726 |
451 |
36.3111 |
135 |
1.20169 |
289 |
186.355 |
|
|
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|
W-box promoter motif |
751 |
30.7769 |
675 |
27.0198 |
458 |
139.172 |
533 |
34.175 |
176 |
1.19182 |
756 |
131.24 |
|
|
||||||||||||
|
CBF2 binding site motif and GBF1/2/3 BS in ADH1 |
- |
- |
- |
- |
34949 |
2.87187 |
540 |
34.0562 |
729 |
1.293 |
998 |
117.554 |
|
|
||||||||||||
|
ARF and ARF1 binding site motif |
976 |
27.5809 |
216 |
42.5544 |
741 |
116.214 |
568 |
33.5619 |
2852 |
1.07934 |
2306 |
80.856 |
|
|
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|
L1-box promoter motif |
2697 |
17.6326 |
- |
- |
5824 |
38.2912 |
585 |
33.083 |
2889 |
1.05367 |
2235 |
81.9035 |
|
|
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|
GATA promoter motif |
1186 |
25.6353 |
741 |
26.1103 |
1247 |
91.6715 |
802 |
29.355 |
355 |
1.08161 |
1033 |
115.612 |
|
|
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|
ATB2/AtbZIP53/AtbZIP44/GBF5 BS in ProDH |
1757 |
21.6648 |
1225 |
20.9254 |
2890 |
60.5806 |
908 |
27.9139 |
1313 |
1.12688 |
3204 |
67.6808 |
|
|
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|
SORLIP2 |
3658 |
14.8663 |
9024 |
6.91197 |
16361 |
14.6754 |
1006 |
26.5383 |
550 |
1.34186 |
780 |
129.375 |
|
|
||||||||||||
|
MYB binding site promoter |
4762 |
12.8183 |
2462 |
15.1743 |
1897 |
75.734 |
1032 |
26.1692 |
4931 |
1.06605 |
2010 |
86.739 |
|
|
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|
CCA1 binding site motif |
1230 |
25.1325 |
371 |
34.5029 |
5202 |
41.532 |
1225 |
24.4536 |
61990 |
0.99765 |
58013 |
-161.161 |
|
|
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|
TGA1 binding site motif |
- |
- |
13290 |
4.96662 |
10326 |
24.0526 |
1233 |
24.3919 |
1660 |
1.21323 |
1879 |
89.7072 |
|
|
||||||||||||
|
SORLIP1 |
5297 |
11.9625 |
6172 |
9.0064 |
11076 |
22.5348 |
1286 |
23.8899 |
4965 |
1.15533 |
4097 |
58.1886 |
|
|
||||||||||||
|
T-box promoter motif |
639 |
32.6567 |
1532 |
19.0267 |
774 |
114.265 |
1325 |
23.5609 |
193 |
1.27522 |
205 |
212.153 |
|
|
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|
Ibox promoter motif |
2156 |
19.649 |
358 |
35.0463 |
3223 |
57.1901 |
1797 |
20.4507 |
1081 |
1.14622 |
628 |
140.679 |
|
|
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|
Box II promoter motif |
1403 |
23.9863 |
4993 |
10.3195 |
1437 |
85.6577 |
1804 |
20.4254 |
1986 |
1.30314 |
669 |
136.891 |
|
|
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|
Hexamer promoter motif |
7590 |
9.4166 |
1616 |
18.5991 |
10347 |
24.0156 |
2225 |
18.6568 |
3477 |
1.24419 |
1252 |
107.567 |
|
|
||||||||||||
|
AtMYC2 BS in RD22 |
1193 |
25.5614 |
4026 |
11.6309 |
3460 |
54.8094 |
2823 |
16.6193 |
646 |
1.21499 |
2073 |
85.133 |
|
|
||||||||||||
|
RAV1-B binding site motif |
7054 |
9.94571 |
8250 |
7.4051 |
11589 |
21.6087 |
2996 |
16.0975 |
6084 |
1.12709 |
2017 |
86.5658 |
|
|
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|
RY-repeat promoter motif |
182 |
49.4382 |
- |
- |
530 |
132.253 |
3097 |
15.8378 |
72 |
1.29305 |
61 |
302.629 |
|
|
||||||||||||
|
MYB3 binding site motif |
5128 |
12.2348 |
10575 |
6.06616 |
1407 |
86.7638 |
3292 |
15.3953 |
3288 |
1.08324 |
11546 |
24.3649 |
|
|
||||||||||||
|
Bellringer/replumless/pennywise BS2 IN AG |
3126 |
16.2923 |
- |
- |
64424 |
-30.4349 |
3694 |
14.5011 |
62777 |
0.97976 |
58184 |
-172.62 |
|
|
||||||||||||
|
AtMYB2 BS in RD22 |
6797 |
10.1949 |
9630 |
6.55608 |
4961 |
42.997 |
4480 |
13.0383 |
3570 |
1.07359 |
3218 |
67.5209 |
|
|
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|
E2F binding site motif and E2F/DP BS in AtCDC6 |
- |
- |
4078 |
11.5443 |
46644 |
-0.929602 |
4953 |
12.223 |
60966 |
1.20703 |
55143 |
-85.466 |
|
|
||||||||||||
|
ERF1 BS in AtCHI-B and GCC-box promoter motif |
- |
- |
681 |
26.9446 |
20822 |
10.4265 |
6359 |
10.5016 |
4340 |
1.35349 |
1735 |
93.0802 |
|
|
||||||||||||
|
Z-box promoter motif |
- |
- |
- |
- |
36029 |
2.48082 |
10144 |
7.62515 |
39199 |
1.00107 |
26784 |
1.42726 |
|
|
||||||||||||
|
LTRE promoter motif |
- |
- |
6230 |
8.95512 |
16036 |
15.0374 |
11248 |
7.01938 |
11296 |
1.13624 |
7155 |
38.6247 |
|
|
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|
SORLIP5 |
5170 |
12.1706 |
3175 |
13.3137 |
14017 |
17.6817 |
11614 |
6.82909 |
14984 |
1.04471 |
22267 |
6.5221 |
|
|
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|
ABFs and ABRE binding site motif |
8540 |
8.6035 |
6266 |
8.92287 |
29109 |
5.33319 |
12250 |
6.52158 |
725 |
1.25598 |
1490 |
100.349 |
|
|
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|
PI promoter motif |
9436 |
7.96403 |
- |
- |
60410 |
-9.96838 |
14596 |
5.56209 |
24540 |
1.01231 |
7902 |
35.621 |
|
|
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|
Observations about the regulatory elements (length = 8) contained in the AGRIS database [25]. |
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|
Lichtenberg et al. BMC Genomics 2009 10:463 doi:10.1186/1471-2164-10-463 |
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