Motif IL_83039.10 Version IL_83039.10 of this group appears in releases 3.54 to 3.61

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Pairwise interactions
Sequence variants
History

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name		1		2	break		3		4	1-4	2-3
1	IL_3IWN_003	3IWN	0.6327	1	Major groove intercalation	A	C-di-GMP riboswitch	C	42	C	44	*	G	81	G	82	cWW	cWW
2	IL_3MXH_003	3MXH	0.5666	1	Major groove intercalation	R	c-di-GMP riboswitch	C	52	C	54	*	G	86	G	87	cWW	cWW
3	IL_1ET4_002	1ET4	0.3890	1	Major groove intercalation	A	RNA APTAMER, 35-MER	G	226	G	228	*	C	218	C	219	cWW	cWW
4	IL_5TBW_053	5TBW	0.2981	1	Single bulged U	1	LSU rRNA	G	1207	G	1209	*	C	1296	C	1297	cWW	cWW
5	IL_2ZY6_002	2ZY6	0.2550	1	Single bulged U	A	phenylalanyl transfer RNA	G	10	G	12	*	C	24	C	25	cWW	cWW
6	IL_6CZR_126	6CZR	0.2584	1	Single bulged U	1a	SSU rRNA	U	363	C	365	*	G	388	A	389	cWW	cWW
7	IL_5J7L_017	5J7L	0.3679	1	Single bulged U	AA	SSU rRNA	U	367	G	369	*	C	392	A	393	cWW	cWW
8	IL_4KZD_001	4KZD	0.3720	1	Single bulged U	R	RNA (84-MER)	C	74	G	76	*	C	10	G	11	cWW	cWW
9	IL_3MEI_001	3MEI	0.2840	1	Single bulged U	B+A	RNA (23-mer)	C	15	G	17	*	C	7	G	8	cWW	cWW
10	IL_6UFG_004	6UFG	0.3658	1	Single bulged U	A	RNA (166-MER)	U	138	C	140	*	G	153	G	154	cWW	cWW
11	IL_6UFH_004	6UFH	0.3994	1	Single bulged U	A	RNA (167-MER)	U	139	C	141	*	G	154	G	155	cWW	cWW
12	IL_3TZR_002	3TZR	0.2726	1	Single bulged U	A+B	RNA (20-mer) + RNA (16-mer)	U	61	C	62	*	G	105	G	107	cWW	cWW
13	IL_4FRG_002	4FRG	0.2472	1	Single bulged U	B	cobalamin riboswitch aptamer domain	C	39	C	40	*	G	23	G	25	cWW	cWW
14	IL_4V88_439	4V88	0.3305	1	Single bulged U	A6	SSU rRNA	C	1066	C	1067	*	G	1051	G	1053	cWW	cWW
15	IL_3NDB_005	3NDB	0.2814	1	Single bulged U	M	SRP RNA	C	139	C	141	*	G	237	G	238	cWW	cWW
16	IL_4V9F_074	4V9F	0.2807	1	Single bulged U	0	LSU rRNA	C	2477	U	2478	*	A	2108	G	2110	cWW	cWW
17	IL_7A0S_075	7A0S	0.2576	1	Single bulged U	X	LSU rRNA	C	2421	C	2422	*	G	2050	G	2052	cWW	cWW
18	IL_4WF9_080	4WF9	0.2551	1	Single bulged U	X	LSU rRNA	C	2469	C	2470	*	G	2094	G	2096	cWW	cWW
19	IL_7RQB_080	7RQB	0.1788	1	Single bulged U	1A	LSU rRNA	C	2442	C	2443	*	G	2067	G	2069	cWW	cWW
20	IL_1S03_005	1S03	0.1990	1	Single bulged U	B	47-MER	C	41	U	42	*	A	6	G	8	cWW	cWW
21	IL_4V9F_039	4V9F	0.2673	1	Single bulged U	0	LSU rRNA	C	1253	C	1254	*	G	1108	G	1110	cWW	cWW
22	IL_6JDV_003	6JDV	0.3875	1	Single bulged U	B	CRISPR RNA direct repeat element	C	81	C	82	*	G	95	G	97	cWW	cWW
23	IL_6CZR_156	6CZR	0.4660	1	Single bulged U	1a	SSU rRNA	C	1043	G	1044	*	C	1177	G	1179	cWW	cWW
24	IL_4LFB_046	4LFB	0.4071	1	Single bulged U	A	SSU rRNA	C	1060	G	1061	*	C	1195	G	1197	cWW	cWW
25	IL_5TBW_032	5TBW	0.3436	1	Single bulged U	1	LSU rRNA	C	886	G	887	*	C	873	G	875	cWW	cWW
26	IL_5TBW_134	5TBW	0.2138	1	Single bulged U	1	LSU rRNA	G	3340	A	3342	*	U	3363	C	3364	cWW	cWW
27	IL_2PN3_003	2PN3	0.2028	1	Single bulged U	B+A	RNA (20-mer)	G	105	G	107	*	U	61	C	62	cWW	cWW
28	IL_4LFB_042	4LFB	0.2026	1	Single bulged U	A	SSU rRNA	G	1048	G	1050	*	C	1208	C	1209	cWW	cWW
29	IL_5J7L_046	5J7L	0.1616	1	Single bulged U	AA	SSU rRNA	G	1048	G	1050	*	C	1208	C	1209	cWW	cWW
30	IL_2A64_003	2A64	0.1598	1	Single bulged U	A	ribonuclease P RNA	G	66	G	68	*	C	77	C	78	cWW	cWW
31	IL_3W3S_002	3W3S	0.1602	1	Single bulged U	B	Selenocysteine transfer RNA	G	43	G	44	*	C	26	C	27	cWW	cWW
32	IL_3W3S_005	3W3S	0.1602	1	Single bulged U	B	Selenocysteine transfer RNA	G	43\|\|\|\|43_455	G	44\|\|\|\|43_455	*	C	26\|\|\|\|43_455	C	27\|\|\|\|43_455	cWW	cWW
33	IL_2UWM_003	2UWM	0.1529	1	Single bulged U	D	RNA (23-mer)	C	21	G	22	*	C	25	G	27	cWW	cWW
34	IL_5TBW_003	5TBW	0.1679	1	Single bulged U	4+1	5.8S rRNA	G	144	U	145	*	A	13	C	15	cWW	cWW
35	IL_5TBW_093	5TBW	0.1204	1	Single bulged U	1	LSU rRNA	A	2811	C	2812	*	G	2409	U	2411	cWW	cWW
36	IL_4V9F_029	4V9F	0.1395	1	Single bulged U	0	LSU rRNA	C	847	C	848	*	G	834	G	836	cWW	cWW
37	IL_4LFB_014	4LFB	0.1502	1	Single bulged U	A	SSU rRNA	U	367	C	369	*	G	392	A	393	cWW	cWW
38	IL_7KVT_002	7KVT	0.0000	1	Single bulged U	B	Squash RNA aptamer bound to DFHBI-1T with iridium (III) ions	G	50	A	52	*	U	66	C	67	cWW	cWW
39	IL_3D2V_001	3D2V	0.0950	1	Single bulged U	A	TPP riboswitch (THI element)	G	73	G	75	*	C	5	C	6	cWW	cWW
40	IL_3WBM_001	3WBM	0.1445	1	Single bulged U	X+Y	RNA (25-MER)	G	2	A	4	*	U	23	C	24	cWW	cWW
41	IL_4V88_407	4V88	0.3077	1	Single bulged U	A6	SSU rRNA	U	463	A	464	*	U	439	A	441	cWW	cWW
42	IL_4V9F_107	4V9F	0.2955	1	Single bulged U	9	5S rRNA	C	95	C	96	*	G	86	G	88	cWW	cWW
43	IL_4V88_449	4V88	0.3380	1	Single bulged U	A6	SSU rRNA	C	1440	C	1441	*	G	1268	G	1270	cWW	cWW
44	IL_4V9F_013	4V9F	0.3255	1	Single bulged U	0	LSU rRNA	G	322	C	323	*	G	307	C	309	cWW	cWW
45	IL_4V88_414	4V88	0.3737	1	Single bulged U	A6	SSU rRNA	G	586	C	587	*	G	557	C	559	cWW	cWW
46	IL_4WF9_030	4WF9	0.4526	1	Single bulged U	X	LSU rRNA	A	897	U	898	*	A	969	U	971	cWW	cWW
47	IL_7A0S_079	7A0S	0.3560	1	Single bulged U	X	LSU rRNA	U	2197	C	2199	*	G	2186	A	2187	cWW	cWW
48	IL_4C7O_001	4C7O	0.3900	1	Single bulged U	E	SRP RNA	U	7	C	8	*	G	38	A	40	cWW	cWW
49	IL_5J7L_298	5J7L	0.4493	1	Single bulged U	DA	LSU rRNA	G	1450	C	1451	*	G	1459	C	1461	cWW	cWW
50	IL_5J7L_279	5J7L	0.3873	1	Single bulged U	DA	LSU rRNA	G	1149	C	1150	*	G	1011	C	1013	cWW	cWW
51	IL_7RQB_038	7RQB	0.3339	1	Single bulged U	1A	LSU rRNA	G	1149	C	1150	*	G	1011	C	1013	cWW	cWW
52	IL_5TBW_146	5TBW	0.3133	1	Single bulged U	4	5.8S rRNA	A	89	C	91	*	G	68	U	69	cWW	cWW
53	IL_4WF9_038	4WF9	0.2255	1	Single bulged U	X	LSU rRNA	U	1193	U	1194	*	A	1055	A	1057	cWW	cWW
54	IL_2OIU_003	2OIU	0.2430	1	Single bulged U	Q	L1 Ribozyme RNA Ligase	G	18	U	20	*	A	41	C	42	cWW	cWW
55	IL_2PJP_001	2PJP	0.2607	1	Single bulged U	B	SECIS RNA	G	16	U	18	*	A	29	C	30	cWW	cWW
56	IL_5TBW_012	5TBW	0.2661	1	Single bulged U	1	LSU rRNA	G	189	U	191	*	A	204	C	205	cWW	cWW
57	IL_4O26_001	4O26	0.3898	1	Single bulged U	E	Telomerase TR	G	181	C	183	*	G	193	C	194	cWW	cWW
58	IL_6JQ6_006	6JQ6	0.3981	1	Single bulged U	U	Hatchet ribozyme	A	38	C	40	*	G	55	U	56	cWW	cWW
59	IL_6JQ6_003	6JQ6	0.3981	1	Single bulged U	U	Hatchet ribozyme	A	38\|\|\|\|11_555	C	40\|\|\|\|11_555	*	G	55\|\|\|\|11_555	U	56\|\|\|\|11_555	cWW	cWW
60	IL_6JQ5_003	6JQ5	0.3895	1	Single bulged U	A	Hatchet ribozyme	A	38	C	40	*	G	55	U	56	cWW	cWW
61	IL_6JQ5_006	6JQ5	0.4048	1	Single bulged U	B	Hatchet ribozyme	A	38	C	40	*	G	55	U	56	cWW	cWW
62	IL_2A64_002	2A64	0.3394	1	Single bulged U	A	ribonuclease P RNA	G	51	C	53	*	G	395	C	396	cWW	cWW
63	IL_2R8S_004	2R8S	0.2795	1	Single bulged U	R	P4-P6 RNA RIBOZYME DOMAIN	G	129	U	131	*	A	192	C	193	cWW	cWW
64	IL_6MWN_006	6MWN	0.3067	1	Single bulged U	B	IRES	U	659	C	661	*	G	646	A	647	cWW	cWW
65	IL_5TBW_025	5TBW	0.1744	1	Single bulged U	1	LSU rRNA	A	775	U	777	*	A	755	U	756	cWW	cWW
66	IL_1S03_001	1S03	0.3931	1	Single bulged U	A	47-MER	C	41	U	42	*	A	6	G	8	cWW	cWW
67	IL_7A0S_035	7A0S	0.3672	1	Single bulged U	X	LSU rRNA	C	1160	U	1161	*	A	1022	G	1024	cWW	cWW
68	IL_5TBW_125	5TBW	0.3521	1	Single bulged U	1	LSU rRNA	C	3193	C	3194	*	G	3197	G	3199	cWW	cWW
69	IL_5TBW_050	5TBW	0.3207	1	Single bulged U	1	LSU rRNA	U	1324	U	1325	*	A	1180	A	1182	cWW	cWW
70	IL_4V88_401	4V88	0.3866	1	Single bulged U	A6	SSU rRNA	C	275	C	276	*	G	279	G	281	cWW	cWW
71	IL_5TBW_130	5TBW	0.3448	1	Single bulged U	1	LSU rRNA	U	3387	C	3388	*	G	3318	A	3320	cWW	ncWW
72	IL_5F9R_003	5F9R	0.5999	1	Single bulged U	A	tracrRNA	G	72	C	73	*	G	76	C	78	cWW	cWW
73	IL_5FQ5_002	5FQ5	0.5861	1	Single bulged U	A	tracrRNA	G	54	C	55	*	G	58	C	60	cWW	cWW
74	IL_5VW1_002	5VW1	0.6287	1	Single bulged U	C	tracrRNA	G	54	C	55	*	G	58	C	60	cWW	cWW
75	IL_5B2T_002	5B2T	0.6290	1	Single bulged U	A	tracrRNA	G	54	C	55	*	G	58	C	60	cWW	cWW
76	IL_4ZT0_004	4ZT0	0.6317	1	Single bulged U	D	tracrRNA	G	54	C	55	*	G	58	C	60	cWW	cWW
77	IL_7RQB_008	7RQB	0.6580	1	Single bulged U	1A	LSU rRNA	G	271\|\|\|I	C	271\|\|\|J	*	G	271\|\|\|M	C	271\|\|\|O	cWW	ncWW

3D structures

Complete motif including flanking bases

Sequence	Counts
CC*GUG	12
GC*GUC	11
GUG*CC	9
AUC*GU	5
UUC*GA	4
CU*AUG	4
CG*CUG	4
GUU*AC	4
CUC*GG	3
GUA*UC	3
CUG*CG	2
UUC*GG	2
UC*GUA	2
UU*AUA	2
GUC*GC	2
UUG*CA	1
UC*GUG	1
GUG*UC	1
GU*AUC	1
AC*GUU	1
UA*UUA	1
AU*AUU	1
AUU*AU	1

Non-Watson-Crick part of the motif

Sequence	Counts
*U	40
U*	37

Release history

Release	3.54	3.55	3.56	3.57	3.58	3.59	3.60	3.61
Date	2022-02-02	2022-03-02	2022-03-30	2022-04-27	2022-05-25	2022-06-22	2022-07-20	2022-08-17
Status	Updated, 2 parents	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: Single bulged U (74)
Major groove intercalation (3)
Basepair signature: cWW-cWW
Heat map statistics: Min 0.03 | Avg 0.43 | Max 1.00

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Coloring options: Nucleotide numbers

Motif IL_83039.10 Version IL_83039.10 of this group appears in releases 3.54 to 3.61 Download Csv Json

3D structures

Complete motif including flanking bases

Non-Watson-Crick part of the motif

Release history

Parent motifs

Children motifs

Motif IL_83039.10 Version IL_83039.10 of this group appears in releases 3.54 to 3.61

Download

Csv

Json