Motif IL_92880.1 Version IL_92880.1 of this group appears in releases 3.88 to 3.88
#S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | break | 3 | 4 | 1-4 | 2-3 | ||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 | IL_387D_001 | 387D | 0.2146 | 2 | Multiple bulged bases | A | RNA Pseudoknot | U | 1 | C | 2 | * | G | 15 | A | 18 | cWW | cWW |
2 | IL_7OS0_002 | 7OS0 | 0.1640 | 2 | F | crRNA | A | 11 | C | 12 | * | G | 29 | U | 32 | cWW | cWW | |
3 | IL_5LYS_007 | 5LYS | 0.1664 | 2 | Basepair outside cWW | B | 7SK RNA | C | 67 | U | 68 | * | A | 39 | G | 42 | cWW | cWW |
4 | IL_5WTK_001 | 5WTK | 0.1597 | 2 | Multiple bulged bases | B | RNA (58-MER) | A | 3 | C | 4 | * | G | 20 | U | 23 | cWW | cWW |
5 | IL_1XOK_001 | 1XOK | 0.1625 | 2 | Basepair outside cWW | A | alfalfa mosaic virus RNA 3' UTR | C | 846 | U | 847 | * | A | 864 | G | 867 | cWW | cWW |
6 | IL_1XOK_002 | 1XOK | 0.1809 | 2 | Basepair outside cWW | A+B | alfalfa mosaic virus RNA 3' UTR | C | 868 | C | 869 | * | G | 877 | G | 880 | cWW | cWW |
7 | IL_5T83_004 | 5T83 | 0.1821 | 2 | Multiple bulged bases | A | Guanidine-I riboswitch | G | 22 | C | 23 | * | G | 33 | C | 36 | cWW | cWW |
8 | IL_6DLR_004 | 6DLR | 0.1429 | 2 | Multiple bulged bases | A | Guanidine-I riboswitch | G | 22 | C | 23 | * | G | 36 | C | 39 | cWW | cWW |
9 | IL_6XH2_001 | 6XH2 | 0.1333 | 3 | D | TRANS-ACTIVATION RESPONSE ELEMENT | C | 39 | U | 40 | * | A | 22 | G | 26 | cWW | cWW | |
10 | IL_6CF2_002 | 6CF2 | 0.1424 | 2 | Major groove outside cWW, minor groove, intercalation pocket | G | RNA (35-MER) | C | 10 | G | 11 | * | C | 22 | G | 25 | cWW | |
11 | IL_3MXH_004 | 3MXH | 0.1524 | 2 | Multiple bulged bases | R | c-di-GMP riboswitch | G | 56 | G | 57 | * | U | 81 | C | 84 | cWW | |
12 | IL_1FUF_002 | 1FUF | 0.1619 | 2 | Multiple bulged bases | B+A | RNA (14-mer) | G | 23 | G | 24 | * | U | 5 | C | 8 | cWW | cWW |
13 | IL_1FUF_003 | 1FUF | 0.1848 | 2 | Multiple bulged bases | A+B | RNA (14-mer) | G | 9 | G | 10 | * | U | 19 | C | 22 | cWW | cWW |
14 | IL_7MLW_005 | 7MLW | 0.1602 | 1 | F | Guanidine-I riboswitch | G | 17 | G | 18 | * | U | 43 | C | 45 | cWW | ||
15 | IL_3IWN_004 | 3IWN | 0.1102 | 2 | Multiple bulged bases | A | C-di-GMP riboswitch | G | 46 | G | 47 | * | U | 76 | C | 79 | cWW | cWW |
16 | IL_8VTW_071 | 8VTW | 0.0636 | 2 | Major groove outside cWW, minor groove, intercalation pocket (H) | 1A | LSU rRNA | U | 1841 | G | 1842 | * | U | 1898 | A | 1901 | cWW | cWW |
17 | IL_5J7L_315 | 5J7L | 0.0000 | 2 | Major groove outside cWW, minor groove, intercalation pocket | DA | LSU rRNA | U | 1841 | G | 1842 | * | U | 1898 | A | 1901 | cWW | cWW |
18 | IL_4V9F_067 | 4V9F | 0.0820 | 2 | Major groove outside cWW, minor groove, intercalation pocket | 0 | LSU rRNA | U | 1897 | G | 1898 | * | U | 1939 | A | 1942 | cWW | cWW |
19 | IL_6JQ6_004 | 6JQ6 | 0.1365 | 1 | Stack outside cWW | U | RNA (81-MER) | G | 31 | G | 32 | * | U | 62 | C | 64 | cWW | cWW |
20 | IL_8C3A_090 | 8C3A | 0.1486 | 2 | Major groove outside cWW, minor groove, intercalation pocket (H) | 1 | LSU rRNA | U | 2178 | G | 2179 | * | U | 2219 | A | 2222 | cWW | cWW |
21 | IL_5TBW_085 | 5TBW | 0.1363 | 2 | Major groove outside cWW, minor groove, intercalation pocket | 1 | LSU rRNA | U | 2200 | G | 2201 | * | U | 2241 | A | 2244 | cWW | |
22 | IL_4WF9_106 | 4WF9 | 0.1784 | 1 | Major groove intercalation | X | LSU rRNA | G | 2858 | G | 2859 | * | U | 2898 | C | 2900 | cWW | cWW |
23 | IL_5J7L_352 | 5J7L | 0.2032 | 1 | Major groove intercalation | DA | LSU rRNA | G | 2838 | G | 2839 | * | U | 2878 | C | 2880 | cWW | cWW |
24 | IL_5WT1_001 | 5WT1 | 0.3067 | 1 | Major groove outside cWW, intercalation pocket | C | tRNA | A | 26 | C | 27 | * | G | 43 | U | 45 | cWW | cWW |
3D structures
Complete motif including flanking bases
Sequence | Counts |
---|---|
UG*UAAA | 3 |
AC*GACU | 2 |
GG*UAGC | 2 |
GG*UUUC | 2 |
GG*UGC | 2 |
GG*UAC | 2 |
UC*GGAA | 1 |
CU*AUUG | 1 |
CU*AAUG | 1 |
CC*GAUG | 1 |
GC*GGUC | 1 |
GC*GGAC | 1 |
CU*AUCUG | 1 |
CG*CUGG | 1 |
UG*UGAA | 1 |
UG*UCAA | 1 |
AC*GGU | 1 |
Non-Watson-Crick part of the motif
Sequence | Counts |
---|---|
*GA | 3 |
*UU | 3 |
*G | 3 |
*AA | 3 |
*AC | 2 |
*AU | 2 |
*AG | 2 |
*A | 2 |
*GU | 1 |
*UCU | 1 |
*UG | 1 |
*CA | 1 |
Release history
Release | 3.88 |
---|---|
Date | 2024-09-11 |
Status | New id, 1 parent |
Parent motifs
This motif has no parent motifs.
Children motifs
This motif has no children motifs.- Annotations
-
- Multiple bulged bases (8)
- Major groove outside cWW, minor groove, intercalation pocket (4)
- Basepair outside cWW (3)
- (3)
- Major groove intercalation (2)
- Major groove outside cWW, minor groove, intercalation pocket (H) (2)
- Major groove outside cWW, intercalation pocket (1)
- Stack outside cWW (1)
- Basepair signature
- cWW-cWW
- Heat map statistics
- Min 0.04 | Avg 0.21 | Max 0.69
Coloring options: