IL_31462.3

#S	Loop id	PDB	Disc	Annotation	Chain(s)	Standardized name		1		2		3	break		4		5	1-5	3-4
1	IL_4V9F_079	4V9F	1.1702	Single bulged A	0	LSU rRNA	U	2290	A	2291	C	2292	*	G	2279	A	2280	cWW	cWW
2	IL_8P9A_325	8P9A	1.1728	Single bulged A	AR	LSU rRNA	C	2625	A	2626	C	2627	*	G	2614	G	2615	cWW	cWW
3	IL_4WF9_098	4WF9	1.2929	Single bulged A	X	LSU rRNA	C	2628	A	2629	G	2630	*	C	2618	G	2619	cWW	cWW
4	IL_4V9F_032	4V9F	1.3045	Single bulged A	0	LSU rRNA	U	942	A	943	G	944	*	C	1023	G	1024	cWW	cWW
5	IL_5J7L_064	5J7L	1.2054	Single bulged A	AA	SSU rRNA	U	1440	A	1441	G	1442	*	C	1460	G	1461	cWW	cWW
6	IL_9DFE_061	9DFE	0.7348	Single bulged A	1A	LSU rRNA	U	1489	A	1490	G	1491	*	C	1499	G	1500	cWW	cWW
7	IL_2OZB_001	2OZB	0.8370	Single bulged A	C	RNA comprising the 5' Stem-Loop RNA of U4snRNA	U	24	A	25	G	26	*	C	47	G	48	cWW	cWW
8	IL_4V9F_098	4V9F	0.5650	Single bulged A	0	LSU rRNA	C	2895	A	2896	C	2897	*	G	2860	G	2861	cWW	cWW
9	IL_4LGT_002	4LGT	0.8318	Single bulged A	E	stem-loop of 23S rRNA	C	2601	A	2602	G	2603	*	C	2591	G	2592	cWW	cWW
10	IL_8UO6_001	8UO6	0.6995	Single bulged A	A	HIV-1 Rev Response Element Stem-Loop II with tRNA scaffold	G	60	A	61	C	62	*	G	42	C	43	cWW	cWW
11	IL_4PHY_004	4PHY	0.7148	Single bulged A	A+B	RNA (26-MER) + RNA (20-mer)	C	20	A	21	C	22	*	G	30	G	31	ncWW	cWW
12	IL_7VTI_001	7VTI	0.7472	Single bulged A	B	crRNA	U	31	A	32	C	33	*	G	4	G	5	cWW	cWW
13	IL_5J7L_302	5J7L	0.8399	Single bulged A	DA	LSU rRNA	C	1489	A	1490	G	1491	*	C	1499	G	1500	cWW	cWW
14	IL_8VMA_003	8VMA	0.7219	Single bulged A	C	RNA (88-MER)	U	46	A	47	G	48	*	C	78	G	79	cWW	cWW
15	IL_7DLZ_001	7DLZ	0.5998	Single bulged A	X	RNA (45-MER)	U	6	A	7	C	8	*	G	39	G	40	cWW	cWW
16	IL_5FJC_001	5FJC	0.7295	Single bulged A	A	SAM-I riboswitch	G	13	A	14\|\|A	G	15	*	C	40	C	41	cWW	cWW
17	IL_8VMB_002	8VMB	0.5619	Single bulged A	R	RNA (83-MER)	U	46	A	47	G	48	*	C	75	G	76	cWW	cWW
18	IL_5WWT_001	5WWT	0.4771	Single bulged A	C	tRNA	G	37	A	38	U	39	*	A	31	C	32	cWW	cWW
19	IL_7MKY_001	7MKY	0.4968	Single bulged A	A	RNA (66-MER)	G	49	A	50	U	51	*	A	35	C	36	cWW	cWW
20	IL_4V9F_002	4V9F	0.5199	Single bulged A	0	LSU rRNA	G	448	A	449	C	450	*	G	33	C	34	cWW	cWW
21	IL_8P9A_388	8P9A	0.4690	Single bulged A	sR	SSU rRNA	A	265	A	266	U	267	*	A	288	U	289	cWW	cWW
22	IL_6XH2_002	6XH2	0.4066	Single bulged A	D	TRANS-ACTIVATION RESPONSE ELEMENT	G	34	A	35	G	36	*	C	29	C	30	cWW	cWW
23	IL_9DFE_032	9DFE	0.3645	Single bulged A	1A	LSU rRNA	U	895	A	896	C	897	*	G	880	G	881	cWW	cWW
24	IL_8VM9_003	8VM9	0.3312	Single bulged A	R	RNA (85-MER)	U	43	A	44	G	45	*	C	75	G	76	cWW	cWW
25	IL_4L8H_001	4L8H	0.5814	Single bulged A	R	RNA operator hairpin	C	4	A	5	U	6	*	A	16	G	17	cWW	cWW
26	IL_8P9A_252	8P9A	0.4577	Single bulged A	AR	LSU rRNA	G	779	A	780	G	781	*	C	752	C	753	cWW	cWW
27	IL_1JZV_002	1JZV	0.4738	Single bulged A	B+A	RNA (9-mer)	U	12	A	13	C	14	*	G	4	A	5	cWW	cWW
28	IL_9DFE_047	9DFE	0.3151	Single bulged A	1A	LSU rRNA	G	1219	A	1220	C	1221	*	G	1229	C	1230	cWW	cWW
29	IL_8P9A_273	8P9A	0.3742	Single bulged A	AR	LSU rRNA	U	1074	A	1075	C	1076	*	G	1083	A	1084	cWW	cWW
30	IL_8P9A_429	8P9A	0.3588	Single bulged A	sR	SSU rRNA	U	1630	A	1631	C	1632	*	G	1146	A	1147	cWW	cWW
31	IL_8C3A_447	8C3A	0.3370	Single bulged A	CM	SSU rRNA	U	1617	A	1618	C	1619	*	G	1131	A	1132	cWW	cWW
32	IL_5J7L_039	5J7L	0.3231	Single bulged A	AA	SSU rRNA	U	1393	A	1394	C	1395	*	G	922	A	923	cWW	cWW
33	IL_4LFB_035	4LFB	0.3425	Single bulged A	A	SSU rRNA	U	1393	A	1394	C	1395	*	G	922	A	923	cWW	cWW
34	IL_6CZR_147	6CZR	0.3504	Single bulged A	1a	SSU rRNA	U	1376	A	1377	C	1378	*	G	900	A	901	cWW	cWW
35	IL_8VFS_002	8VFS	0.0000	Single bulged A	A+B	RNA (27-MER)	A	11	A	12	G	13	*	C	17	U	18	cWW	cWW
36	IL_1I9X_002	1I9X	0.2788	Single bulged A	B+A	RNA (13-mer)	U	4	A	5	A	6	*	U	9	A	10	cWW	cWW
37	IL_1DUQ_002	1DUQ	0.2564	Single bulged A	B+A	THE REV BINDING ELEMENT	G	120	A	121	C	122	*	G	108	C	109	cWW	cWW
38	IL_1CSL_002	1CSL	0.2809	Single bulged A	B+A	RNA (15-mer)	G	67	A	68	C	69	*	G	50	C	51	cWW	cWW
39	IL_3CGP_002	3CGP	0.3049	Single bulged A	B+A	RNA (13-mer)	U	19	A	20	A	21	*	PSU	6	A	7	cWW	cWW
40	IL_5AOX_002	5AOX	0.2812	Single bulged A	C	ALU JO CONSENSUS RNA	G	56	A	57	G	58	*	C	108	C	109	cWW	cWW
41	IL_8P9A_341	8P9A	0.5012	Single bulged A	AR	LSU rRNA	C	2970	A	2971	G	2972	*	C	2960	G	2961	cWW	cWW
42	IL_5J7L_344	5J7L	0.4285	Single bulged A	DA	LSU rRNA	C	2601	A	2602	G	2603	*	C	2591	G	2592	cWW	cWW
43	IL_4AOB_001	4AOB	0.4168	Single bulged A	A	SAM-I riboswitch	G	13	A	14	G	15	*	C	40	C	41	cWW	cWW
44	IL_1I9X_001	1I9X	0.4319	Single bulged A	A+B	RNA (13-mer)	U	4	A	5	A	6	*	U	9	A	10	cWW	cWW
45	IL_1NBS_005	1NBS	0.4531	Single bulged A	B	RNase P class B	G	129	A	130	C	131	*	G	113	C	114	cWW	cWW
46	IL_9DFE_002	9DFE	0.4200	Single bulged A	1A	LSU rRNA	G	442	A	443	C	444	*	G	36	C	37	cWW	cWW
47	IL_7A0S_002	7A0S	0.5071	Single bulged A	X	LSU rRNA	G	454	A	455	C	456	*	G	36	C	37	cWW	cWW
48	IL_4WF9_002	4WF9	0.4272	Single bulged A	X	LSU rRNA	G	488	A	489	C	490	*	G	36	C	37	cWW	cWW
49	IL_5J7L_246	5J7L	0.4152	Single bulged A	DA	LSU rRNA	G	442	A	443	C	444	*	G	36	C	37	cWW	cWW
50	IL_8P9A_242	8P9A	0.3031	Single bulged A	AR+AT	LSU rRNA + 5.8S rRNA	G	337	A	338	C	339	*	G	25	U	26	cWW	cWW
51	IL_1U9S_001	1U9S	0.4517	Single bulged A	A	RIBONUCLEASE P	G	107	A	108	C	109	*	G	95	C	96	cWW	cWW
52	IL_8P9A_399	8P9A	0.4810	Single bulged A	sR	SSU rRNA	A	505	A	506	U	507	*	A	481	U	482	ncWW	cWW
53	IL_1GID_009	1GID	0.3666	Single bulged A	B	P4-P6 RNA RIBOZYME DOMAIN	C	209	A	210	C	211	*	G	110	G	111	cWW	cWW
54	IL_3V7E_001	3V7E	0.4910	Single bulged A	C	SAM-I riboswitch	G	13	A	14	G	15	*	C	40	C	41	cWW	cWW
55	IL_4R4V_003	4R4V	0.3795	Single bulged A	A	VS ribozyme RNA	C	651	A	652	G	653	*	C	766	G	767	cWW	cWW
56	IL_2VPL_002	2VPL	0.4478	Single bulged A	B	FRAGMENT OF MRNA FOR L1-OPERON CONTAINING REGULATOR L1-BINDING SITE	G	28	A	29	A	30	*	U	16	C	17	cWW	cWW
57	IL_4P3U_011	4P3U	0.3726	Single bulged A	C+D	RNA (23-mer)	A	17	A	18	G	19	*	C	30	U	31	cWW	cWW
58	IL_4P3U_008	4P3U	0.4091	Single bulged A	D+C	RNA (23-mer)	A	40	A	41	G	42	*	C	7	U	8	cWW	cWW
59	IL_8P9A_246	8P9A	0.4105	Single bulged A	AR	LSU rRNA	C	577	A	578	G	579	*	U	512	G	513	cWW	cWW
60	IL_2C4Q_001	2C4Q	0.4605	Single bulged A	R	RNA (19-mer)	G	5\|\|\|\|P_1	A	6\|\|\|\|P_1	G	7\|\|\|\|P_1	*	C	14\|\|\|\|P_1	C	15\|\|\|\|P_1	cWW	cWW
61	IL_6MSF_001	6MSF	0.5452	Single bulged A	R	RNA (14-mer)	C	2\|\|\|\|P_1	A	3\|\|\|\|P_1	C	4\|\|\|\|P_1	*	G	12\|\|\|\|P_1	G	13\|\|\|\|P_1	cWW	cWW
62	IL_8P9A_288	8P9A	0.6015	Single bulged A	AR	LSU rRNA	U	1398	A	1399	G	1400	*	C	1411	G	1412	cWW	cWW
63	IL_8P9A_310	8P9A	0.4728	Single bulged A	AR	LSU rRNA	G	2323	A	2324	G	2325	*	C	2128	U	2129	cWW	cWW
64	IL_9DFE_069	9DFE	0.4407	Single bulged A	1A	LSU rRNA	G	1980	A	1981	C	1982	*	G	1770	C	1771	cWW	cWW
65	IL_4V9F_064	4V9F	0.4746	Single bulged A	0	LSU rRNA	C	2021	A	2022	G	2023	*	C	1826	G	1827	cWW	cWW
66	IL_5J7L_312	5J7L	0.5120	Single bulged A	DA	LSU rRNA	G	1980	A	1981	U	1982	*	G	1770	C	1771	cWW	cWW
67	IL_4WF9_068	4WF9	0.5203	Single bulged A	X	LSU rRNA	G	2007	A	2008	U	2009	*	G	1797	C	1798	cWW	cWW
68	IL_7A0S_064	7A0S	0.4956	Single bulged A	X	LSU rRNA	G	1963	A	1964	U	1965	*	G	1761	C	1762	cWW	cWW
69	IL_8C3A_143	8C3A	0.7302	Single bulged A	3	5S rRNA	A	63	A	64	G	65	*	C	15	U	16	cWW	cWW
70	IL_8P9A_364	8P9A	0.7205	Single bulged A	AS	5S rRNA	A	63	A	64	G	65	*	C	15	U	16	cWW	cWW
71	IL_7A0S_012	7A0S	0.5628	Single bulged A	X	LSU rRNA	G	600	A	601	C	602	*	G	678	C	679	cWW	cWW
72	IL_3MJA_001	3MJA	0.4773	Single bulged A	B	Domain 3 of the cricket paralysis virus intergenic region IRES RNA	C	6181	A	6182	G	6183	*	C	6194	G	6195	cWW	cWW
73	IL_3OXE_001	3OXE	0.7907	Single bulged A	A	domain II of glycine riboswitch	G	12	A	13	A	14	*	U	27	C	28	cWW	cWW
74	IL_9DFE_058	9DFE	0.6992	Single bulged A	1A	LSU rRNA	G	1459	A	1460	G	1461	*	C	1450\|\|\|A	C	1451	cWW	cWW
75	IL_9DFE_017	9DFE	0.5143	Single bulged A	1A	LSU rRNA	G	763	A	764	G	765	*	C	697	C	698	cWW	cWW
76	IL_7A0S_016	7A0S	0.5624	Single bulged A	X	LSU rRNA	G	776	A	777	G	778	*	C	710	C	711	cWW	cWW
77	IL_4WF9_022	4WF9	0.5557	Single bulged A	X	LSU rRNA	G	808	A	809	A	810	*	U	742	C	743	cWW	cWW
78	IL_5J7L_261	5J7L	0.5712	Single bulged A	DA	LSU rRNA	G	763	A	764	C	765	*	G	697	C	698	cWW	cWW
79	IL_4V9F_025	4V9F	0.5640	Single bulged A	0	LSU rRNA	G	856	A	857	U	858	*	A	788	C	789	cWW	cWW
80	IL_3CGS_002	3CGS	0.5749	Single bulged A	B+A	RNA (13-mer)	G	20	A	21	C	22	*	G	5	PSU	6	cWW	cWW
81	IL_3CGR_002	3CGR	0.5102	Single bulged A	B+A	RNA (13-mer)	A	19	A	20	C	21	*	G	6	PSU	7	cWW	cWW
82	IL_8VFS_004	8VFS	0.3833	Single bulged A	B+A	RNA (27-MER)	U	10	A	11	A	12	*	U	18	G	19	cWW	cWW
83	IL_4R4V_004	4R4V	0.4939	Single bulged A	A	VS ribozyme RNA	U	712	A	713	G	714	*	C	660	A	661	cWW	cWW
84	IL_8P9A_351	8P9A	0.5431	Single bulged A	AR	LSU rRNA	G	3177	A	3178	U	3179	*	A	3210	C	3211	cWW	cWW
85	IL_1U63_004	1U63	0.5077	Single bulged A	D	49 NT FRAGMENT OF MRNA FOR L1	G	28	A	29	A	30	*	U	16	C	17	cWW	cWW
86	IL_6WPI_001	6WPI	0.4584	Single bulged A	B	RNA (47-MER)	G	11	A	12	A	13	*	U	41	C	42	cWW	cWW
87	IL_2QUX_002	2QUX	0.5793	Single bulged A	F	RNA (25-MER)	C	5	A	6	G	7	*	C	20	G	21	cWW	cWW
88	IL_4WF9_006	4WF9	0.5336	Single bulged A	X	LSU rRNA	C	175	A	176	G	177	*	C	152	G	153	cWW	cWW
89	IL_8P9A_441	8P9A	0.6758	Single bulged A	sR	SSU rRNA	C	1426	A	1427	G	1428	*	C	1280	G	1281	cWW	cWW
90	IL_8C3A_458	8C3A	0.6519	Single bulged A	CM	SSU rRNA	C	1412	A	1413	G	1414	*	C	1265	G	1266	cWW	cWW
91	IL_8C3A_418	8C3A	0.7762	Single bulged A	CM	SSU rRNA	A	503	A	504	U	505	*	A	479	U	480	cWW	cWW
92	IL_6CYT_001	6CYT	0.5484	Single bulged A	N	RNA (17-mer)	G	34	A	35	G	36	*	C	29	C	30	cWW	cWW
93	IL_1MFQ_005	1MFQ	0.6841	Single bulged A	A	SRP RNA	G	175	A	176	G	177	*	C	220	C	221	cWW	cWW
94	IL_8UIW_001	8UIW	0.6134	Single bulged A	N	yjdF RNA (R. gauvreauii)	G	44	A	45	U	46	*	A	63	C	64	cWW	cWW
95	IL_6D3P_004	6D3P	0.6742	Single bulged A	A	RNA (45-MER)	G	27	A	28	G	29	*	C	12	C	13	cWW	cWW
96	IL_7JJU_002	7JJU	0.3909	Single bulged A	A	PLRV_xrRNA	C	31	A	32	U	33	*	A	12	G	13	cWW	cWW
97	IL_7JJU_004	7JJU	0.3869	Single bulged A	B	PLRV_xrRNA	C	31	A	32	U	33	*	A	12	G	13	cWW	cWW
98	IL_8XZL_003	8XZL	1.0280	Single bulged A	A	RNA (53-MER)	G	32	A	33	C	34	*	G	27	C	28	cWW	cWW
99	IL_8P9A_286	8P9A	0.9816	Single bulged A	AR	LSU rRNA	C	1385	A	1386	G	1387	*	C	1420	G	1421	cWW	cWW
100	IL_5J7L_049	5J7L	0.9163	Single bulged A	AA	SSU rRNA	C	1195	A	1196	A	1197	*	U	1060	G	1061	cWW	cWW
101	IL_6CZR_114	6CZR	1.0423	Single bulged A	1a	SSU rRNA	G	392	A	393	C	394	*	G	45	U	46	cWW	cWW
102	IL_4LFB_002	4LFB	1.0798	Single bulged A	A	SSU rRNA	G	396	A	397	C	398	*	G	44	U	45	cWW	cWW
103	IL_5J7L_002	5J7L	1.0335	Single bulged A	AA	SSU rRNA	C	396	A	397	U	398	*	A	44	G	45	cWW	cWW
104	IL_9DFE_100	9DFE	1.0163	Single bulged A	1A	LSU rRNA	C	2601	A	2602	G	2603	*	C	2591	G	2592	cWW	cWW
105	IL_4PHY_002	4PHY	1.0621	Single bulged A	B+A	RNA (20-mer)	G	38	A	39	G	40	*	C	12	C	13	cWW	cWW
106	IL_4P97_002	4P97	1.0924	Single bulged A	B+A	RNA (11-mer)	G	38	A	39	G	40	*	C	12	C	13	cWW	cWW
107	IL_5CNR_002	5CNR	1.0631	Single bulged A	B+A	RNA (11-mer)	G	38	A	39	G	40	*	C	12	C	13	cWW	cWW
108	IL_5J7L_355	5J7L	1.3810	Major groove intercalation	DB	5S rRNA	U	65	A	66	G	67	*	C	17	G	18	cWW	cWW
109	IL_4WF9_112	4WF9	1.4611	Major groove intercalation	Y	5S rRNA	U	63	A	64	G	65	*	C	15	A	16	cWW	cWW
110	IL_9DFE_110	9DFE	1.4474	Major groove intercalation	1B	5S rRNA	C	65	A	66	G	67	*	C	17	G	18	cWW	cWW
111	IL_4V9F_101	4V9F	1.4945	Major groove intercalation	9	5S rRNA	C	64	A	65	G	66	*	C	15	G	16	cWW	cWW
112	IL_7DLZ_002	7DLZ	1.6141	Major groove intercalation	X	RNA (45-MER)	U	9	A	10	C	11	*	G	37	G	38	cWW	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
CAG*CG	16
GAG*CC	16
GAC*GC	15
UAG*CG	9
UAC*GA	8
CAC*GG	5
GAU*AC	5
AAG*CU	5
GAA*UC	5
UAC*GG	4
CAU*AG	4
AAU*AU	3
GAC*GU	3
GAU*GC	3
UAA*UA	2
UAG*CA	2
UAA*(PSU)A	1
CAG*UG	1
GAG*CU	1
GAC*G(PSU)	1
AAC*G(PSU)	1
UAA*UG	1
CAA*UG	1

Non-Watson-Crick part of the motif

Sequence	Counts
A*	112

Release history

Release	3.92	3.93	3.94
Date	2025-01-01	2025-01-29	2025-02-26
Status	Updated, 1 parent	Exact match	Exact match

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.

Motif IL_31462.3 Version IL_31462.3 of this group appears in releases 3.92 to 3.94 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_31462.3 Version IL_31462.3 of this group appears in releases 3.92 to 3.94

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Csv

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