Motif IL_13730.1 Version IL_13730.1 of this group appears in releases 3.3 to 3.11
#S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | break | 3 | 4 | 1-4 | 2-3 | ||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 | IL_5TBW_136 | 5TBW | 0.7130 | 2 | Multiple bulged bases | 1 | LSU rRNA | C | 3349 | C | 3350 | * | G | 3353 | G | 3356 | ncWW | cWW |
2 | IL_4V9F_088 | 4V9F | 0.6117 | 2 | Multiple bulged bases | 0 | LSU rRNA | C | 2547 | C | 2548 | * | G | 2606 | G | 2609 | cWW | cWW |
3 | IL_5TBW_109 | 5TBW | 0.6159 | 2 | Multiple bulged bases | 1 | LSU rRNA | C | 2881 | U | 2882 | * | A | 2940 | G | 2943 | cWW | cWW |
4 | IL_5TBW_119 | 5TBW | 0.4517 | 2 | Multiple bulged bases | 1 | LSU rRNA | C | 3063 | U | 3064 | * | A | 3077 | G | 3080 | cWW | cWW |
5 | IL_4Y4O_273 | 4Y4O | 0.5880 | 2 | Multiple bulged bases | 2A | LSU rRNA | C | 2512 | G | 2513 | * | C | 2571 | G | 2574 | cWW | cWW |
6 | IL_4IOA_092 | 4IOA | 0.5720 | 2 | Multiple bulged bases | X | LSU rRNA | C | 2491 | G | 2492 | * | C | 2550 | G | 2553 | cWW | cWW |
7 | IL_3IGI_013 | 3IGI | 0.4437 | 2 | Multiple bulged bases | A | Group IIC intron | U | 365 | A | 366 | * | U | 375 | G | 378 | cWW | cWW |
8 | IL_4R0D_019 | 4R0D | 0.3981 | 2 | A | Group II catalytic intron | U | 558 | G | 559 | * | C | 572 | G | 575 | cWW | cWW | |
9 | IL_4V8P_279 | 4V8P | 0.3406 | 2 | Multiple bulged bases (H) | D1 | LSU rRNA | U | 3052 | U | 3053 | * | A | 3066 | G | 3069 | cWW | cWW |
10 | IL_5J7L_349 | 5J7L | 0.3240 | 2 | Multiple bulged bases | DA | LSU rRNA | U | 2695 | U | 2696 | * | A | 2711 | G | 2714 | cWW | cWW |
11 | IL_4WF9_103 | 4WF9 | 0.3200 | 2 | Multiple bulged bases | X | LSU rRNA | U | 2722 | U | 2723 | * | A | 2738 | G | 2741 | cWW | cWW |
12 | IL_1KXK_003 | 1KXK | 0.3590 | 2 | Multiple bulged bases | A | ai5g group II Self-splicing intron | U | 28 | G | 29 | * | C | 42 | G | 45 | cWW | cWW |
13 | IL_1NBS_009 | 1NBS | 0.1677 | 2 | Major groove intercalation | B | RNase P class B | U | 228 | A | 231 | * | U | 181 | G | 182 | cWW | cWW |
14 | IL_1U9S_003 | 1U9S | 0.0000 | 2 | Major groove intercalation | A | RIBONUCLEASE P | C | 224 | A | 227 | * | U | 116 | G | 117 | cWW | cWW |
15 | IL_4LFB_022 | 4LFB | 0.1675 | 5 | A | SSU rRNA | C | 569 | G | 575 | * | C | 880 | G | 881 | cWW | cWW | |
16 | IL_5J7L_026 | 5J7L | 0.1694 | 5 | AA | SSU rRNA | C | 569 | G | 575 | * | C | 880 | G | 881 | cWW | cWW | |
17 | IL_4LFB_007 | 4LFB | 0.2727 | 2 | Multiple bulged bases | A | SSU rRNA | U | 129 | C | 131 | * | G | 231 | G | 232 | cWW | cWW |
18 | IL_5J7L_315 | 5J7L | 0.2896 | 2 | Major groove intercalation | DA | LSU rRNA | U | 1898 | A | 1901 | * | U | 1841 | G | 1842 | cWW | cWW |
19 | IL_4V9F_067 | 4V9F | 0.2823 | 2 | Major groove intercalation | 0 | LSU rRNA | U | 1939 | A | 1942 | * | U | 1897 | G | 1898 | cWW | cWW |
20 | IL_5TBW_085 | 5TBW | 0.2622 | 2 | Major groove intercalation | 1 | LSU rRNA | U | 2241 | A | 2244 | * | U | 2200 | G | 2201 | cWW | cWW |
21 | IL_3MXH_004 | 3MXH | 0.2303 | 2 | Multiple bulged bases | R | c-di-GMP riboswitch | U | 81 | C | 84 | * | G | 56 | G | 57 | cWW | cWW |
22 | IL_1FUF_003 | 1FUF | 0.2406 | 2 | Multiple bulged bases | B+A | RNA (14-mer) | U | 19 | C | 22 | * | G | 9 | G | 10 | cWW | cWW |
23 | IL_1FUF_002 | 1FUF | 0.2603 | 2 | Multiple bulged bases | A+B | RNA (14-mer) | U | 5 | C | 8 | * | G | 23 | G | 24 | cWW | cWW |
24 | IL_3IWN_004 | 3IWN | 0.2845 | 2 | Multiple bulged bases | A | C-di-GMP riboswitch | U | 76 | C | 79 | * | G | 46 | G | 47 | cWW | cWW |
25 | IL_4V5O_091 | 4V5O | 0.4056 | 2 | Multiple bulged bases (H) | BA | SSU rRNA | U | 109 | U | 112 | * | A | 291 | G | 292 | cWW | cWW |
26 | IL_4WF9_071 | 4WF9 | 0.3753 | 2 | Major groove intercalation | X | LSU rRNA | U | 1925 | A | 1928 | * | U | 1868 | G | 1869 | cWW | cWW |
27 | IL_5J7L_005 | 5J7L | 0.3404 | 2 | Multiple bulged bases | AA | SSU rRNA | C | 63 | A | 66 | * | U | 103 | G | 104 | cWW | cWW |
28 | IL_4LFB_005 | 4LFB | 0.3951 | 2 | Multiple bulged bases | A | SSU rRNA | C | 63 | G | 66 | * | C | 103 | G | 104 | cWW | cWW |
29 | IL_4V9F_021 | 4V9F | 0.3555 | 2 | Multiple bulged bases | 0 | LSU rRNA | C | 699 | G | 702 | * | C | 726 | G | 727 | cWW | cWW |
30 | IL_4YAZ_008 | 4YAZ | 0.4285 | 2 | Multiple bulged bases | R | Cyclic di-GMP-I riboswitch | C | 64 | C | 67 | * | G | 51 | G | 52 | cWW | cWW |
31 | IL_3Q1Q_004 | 3Q1Q | 0.2615 | 2 | B | RNase P RNA | C | 205 | C | 208 | * | G | 108 | G | 109 | cWW | cWW | |
32 | IL_5W1H_001 | 5W1H | 0.3874 | 2 | Multiple bulged bases | B | mature crRNA | C | -7 | U | -4 | * | A | -23 | G | -22 | cWW | cWW |
33 | IL_5WLH_001 | 5WLH | 0.3880 | 2 | Multiple bulged bases | B | pre-crRNA | C | -7 | U | -4 | * | A | -23 | G | -22 | cWW | cWW |
34 | IL_4V8P_209 | 4V8P | 0.5018 | 2 | D1 | LSU rRNA | U | 1101 | C | 1104 | * | G | 1111 | A | 1112 | cWW | cWW | |
35 | IL_4V88_392 | 4V88 | 0.4551 | 2 | Multiple bulged bases | A6 | SSU rRNA | U | 113 | U | 116 | * | A | 300 | A | 301 | cWW | cWW |
36 | IL_5WTK_001 | 5WTK | 0.4904 | 2 | Multiple bulged bases | B | RNA (58-MER) | G | 20 | U | 23 | * | A | 3 | C | 4 | cWW | cWW |
37 | IL_5XWP_001 | 5XWP | 0.5631 | 2 | Multiple bulged bases | C | RNA (59-MER) | G | 22 | U | 25 | * | A | 5 | C | 6 | cWW | cWW |
38 | IL_4IOA_024 | 4IOA | 0.5552 | 1 | Single bulged C (H) | X | LSU rRNA | G | 938 | G | 940 | * | C | 863 | C | 864 | cWW | cWW |
39 | IL_4V5O_112 | 4V5O | 0.3376 | 5 | BA | SSU rRNA | G | 610 | A | 616 | * | U | 1076 | C | 1077 | cWW | cWW | |
40 | IL_1R3E_002 | 1R3E | 0.4247 | 3 | Multiple bulged bases | E+D | RNA (17-mer) | G | 408 | G | 412 | * | C | 415 | C | 416 | cWW | cWW |
41 | IL_1R3E_001 | 1R3E | 0.4091 | 3 | Multiple bulged bases | E+D | RNA (17-mer) | C | 415 | C | 416 | * | G | 408 | G | 412 | cWW | cWW |
42 | IL_4V8P_167 | 4V8P | 0.3298 | 2 | D1 | LSU rRNA | C | 177 | U | 178 | * | A | 240 | G | 243 | cWW | cWW |
3D structures
Complete motif including flanking bases
Sequence | Counts |
---|---|
UAAA*UG | 4 |
CG*CACG | 2 |
CGUAAAG*CG | 2 |
UAGC*GG | 2 |
UUUC*GG | 2 |
CAAU*AG | 2 |
GACU*AC | 2 |
CC*GUUG | 1 |
CC*GUCG | 1 |
CU*AACG | 1 |
CU*AUUG | 1 |
UA*UACG | 1 |
UG*CAAG | 1 |
UU*AAUG | 1 |
UU*ACUG | 1 |
UU*AUAG | 1 |
UG*CACG | 1 |
CAAA*UG | 1 |
UGAC*GG | 1 |
UCAA*UG | 1 |
UAGU*AG | 1 |
CGAA*UG | 1 |
CGUG*CG | 1 |
CAUG*CG | 1 |
CAGC*GG | 1 |
CAAC*GG | 1 |
UUAC*GA | 1 |
UCGU*AA | 1 |
GCG*CC | 1 |
GUUAAAA*UC | 1 |
GUUCG*CC | 1 |
CC*GUUCG | 1 |
CU*AAGG | 1 |
Non-Watson-Crick part of the motif
Sequence | Counts |
---|---|
AA* | 8 |
*AC | 5 |
AG* | 4 |
*UU | 2 |
GUAAA* | 2 |
GA* | 2 |
UU* | 2 |
AC* | 2 |
*UC | 1 |
*AA | 1 |
*AU | 1 |
*CU | 1 |
*UA | 1 |
CA* | 1 |
GU* | 1 |
AU* | 1 |
UA* | 1 |
CG* | 1 |
C* | 1 |
UUAAA* | 1 |
UUC* | 1 |
*UUC | 1 |
*AG | 1 |
Release history
Release | 3.3 | 3.4 | 3.5 | 3.6 | 3.7 | 3.8 | 3.9 | 3.10 | 3.11 |
---|---|---|---|---|---|---|---|---|---|
Date | 2018-03-08 | 2018-04-06 | 2018-05-04 | 2018-06-01 | 2018-06-29 | 2018-07-27 | 2018-08-24 | 2018-09-21 | 2018-10-19 |
Status | New id, > 2 parents | Exact match | Exact match | Exact match | Exact match | Exact match | Exact match | Exact match | Exact match |
Parent motifs
This motif has no parent motifs.
Children motifs
This motif has no children motifs.- Annotations
-
- Multiple bulged bases (26)
- (7)
- Major groove intercalation (6)
- Multiple bulged bases (H) (2)
- Single bulged C (H) (1)
- Basepair signature
- cWW-cWW
- Heat map statistics
- Min 0.02 | Avg 0.47 | Max 0.99
Coloring options: