Motif IL_41766.2 Version IL_41766.2 of this group appears in releases 0.7 to 1.0

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Pairwise interactions
Sequence variants
History

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name		1		2		3		4	break		5		6		7		8	1-8	2-7	3-5	3-6	4-5	7-8
1	IL_2O3V_002	2O3V	0.7369	1	Decoding loop related	A+B	RNA (23-mer)	C	7	G	8	C	9	U	10	*	A	38	A	39	A	41	G	42	cWW			cWWa	cWW
2	IL_2NOK_007	2NOK	0.5070	0		C+D	RNA (24-mer) + RNA (20-mer)	C	62	U	63	U	64	C	65	*	G	102	U	103	C	104	G	105	cWW			cWw	cWW
3	IL_3U5F_078	3U5F	0.4299	0		6	18S rRNA	C	1509	U	1510	U	1511	G	1512	*	C	1495	U	1496	U	1497	G	1498	cWW			cWw	cWW
4	IL_3U5F_008	3U5F	0.3813	0		6	18S rRNA	G	109	U	110	U	111	A	112	*	U	302	U	303	U	304	C	305	cWW	cwW		cWw	cWW
5	IL_2XZM_008	2XZM	0.4197	0		A	18S RRNA	G	105	U	106	U	107	A	108	*	U	293	U	294	U	295	C	296	cWW	cwW		cWw	cWW
6	IL_3U5F_046	3U5F	0.3301	1		6	18S rRNA	G	867	G	868	A	869	C	870	*	G	957	U	958	U	960	U	961	cWW	ncWW			cWW
7	IL_402D_001	402D	0.3871	0	Tandem non-canonical cWW pairs	B+A	RNA (8-mer)	C	111	C	112	A	113	G	114	*	C	103	C	104	A	105	G	106	cWW	cWW		cWW	cWW
8	IL_3U5H_043	3U5H	0.3542	0		5	25S rRNA	U	1041	U	1042	C	1043	U	1044	*	A	1006	U	1007	U	1008	A	1009	cWW	cwW			cWW
9	IL_4A1B_047	4A1B	0.4766	0		1	26S RRNA	U	1067	U	1068	C	1069	U	1070	*	A	1032	U	1033	U	1034	A	1035	ncWW	cwW		ncWS	cWW
10	IL_3U5F_090	3U5F	0.4415	0		6	18S rRNA	U	1723	U	1724	U	1725	G	1726	*	C	1675	U	1676	C	1677	A	1678	cWW			cWw	cWW
11	IL_280D_001	280D	0.3658	0	Tandem non-canonical cWW pairs	B+A	RNA (12-mer)	C	17	U	18	U	19	G	20	*	C	5	U	6	U	7	G	8	cWW	cwW		cWw	cWW
12	IL_3U5H_134	3U5H	0.3540	0		5	25S rRNA	C	3249	U	3250	U	3251	G	3252	*	C	3235	U	3236	U	3237	G	3238	cWW	cwW		cWw	cWW
13	IL_3R2D_002	3R2D	0.3124	0	Tandem non-canonical cWW pairs	R+S	RNA (12-mer)	C	6	U	7	U	8	G	9	*	C	6	U	7	U	8	G	9	cWW	cwW		cWw	cWW
14	IL_3U5H_135	3U5H	0.3489	0		5	25S rRNA	U	3300	U	3301	U	3302	G	3303	*	C	3311	U	3312	U	3313	A	3314	cWW	cwW		cWw	cWW
15	IL_4EYA_012	4EYA	0.3771	0		r+q	RNA (12-mer)	C	6	U	7	U	8	G	9	*	C	6	U	7	U	8	G	9	cWW	cwW		cWw	cWW
16	IL_2XZM_088	2XZM	0.3008	0		A	18S RRNA	U	1635	C	1636	U	1637	G	1638	*	C	1687	C	1688	U	1689	A	1690	cWW	cWW		cWW	cWW
17	IL_2ZJR_040	2ZJR	0.3390	0	Tandem non-canonical cWW pairs (H)	X	LSU rRNA	A	1175	U	1176	U	1177	C	1178	*	G	1196	U	1197	C	1198	U	1199	cWW	cWW		cWw	cWW
18	IL_3TZR_003	3TZR	0.3246	0	Tandem non-canonical cWW pairs	A+B	RNA (20-mer) + RNA (16-mer)	C	62	U	63	U	64	C	65	*	G	102	U	103	C	104	G	105	cWW	cWW		cWw	cWW
19	IL_2PN4_004	2PN4	0.2868	0		A+B	RNA (24-mer) + RNA (20-mer)	C	62	U	63	U	64	C	65	*	G	102	U	103	C	104	G	105	cWW	cWW		cWw	cWW
20	IL_2XZM_002	2XZM	0.3809	0		A	18S RRNA	A	23	C	24	A	25	U	26	*	A	593	U	594	A	595	U	596	cWW	cWW	ncWw	cWW	cWW
21	IL_2NOK_004	2NOK	0.3548	0		B+A	RNA (20-mer)	G	102	U	103	C	104	G	105	*	C	62	U	63	U	64	C	65	cWW	ncwW		ncWW	cWW
22	IL_2XZM_091	2XZM	0.3175	0		A	18S RRNA	A	1676	A	1677	U	1678	A	1679	*	U	1646	U	1647	C	1648	U	1649	cWW	cWWa		ncwW	cWW
23	IL_3U5F_049	3U5F	0.4428	0		6	18S rRNA	G	885	U	886	A	887	U	888	*	A	924	G	925	A	926	C	927	cWW			cWW	cWW
24	IL_3U5F_047	3U5F	0.4312	0		6	18S rRNA	G	871	G	872	U	873	C	874	*	G	953	G	954	A	955	C	956	cWW	cWW			cWW
25	IL_2XZM_044	2XZM	0.4383	0		A	18S RRNA	A	849	G	850	U	851	U	852	*	A	931	G	932	A	933	U	934	cWW	cWW		ncWW	cWW
26	IL_3U5F_055	3U5F	0.3945	0		6	18S rRNA	G	1074	C	1075	A	1076	C	1077	*	G	1041	G	1042	A	1043	U	1044	cWW	ncBW		cWW	cWW
27	IL_2XZM_052	2XZM	0.3844	0		A	18S RRNA	G	1046	C	1047	A	1048	C	1049	*	G	1019	G	1020	A	1021	U	1022	ncWW	ncBW		cWW	cWW
28	IL_1JID_002	1JID	0.3224	0	Tandem non-canonical cWW pairs	B	HELIX 6 OF HUMAN SRP RNA	G	138	A	139	C	140	C	141	*	G	156	A	157	C	158	C	159	cWW	cWW		cWW	cWW
29	IL_1D4R_003	1D4R	0.3515	0	Tandem non-canonical cWW pairs	B+A	29-MER OF MODIFIED SRP RNA HELIX 6	G	4	A	5	C	6	C	7	*	G	22	A	23	C	24	C	25	cWW	cWW		cWW	cWW
30	IL_1MFQ_004	1MFQ	0.2880	0	Tandem non-canonical cWW pairs	A	SRP RNA	G	156	A	157	C	158	C	159	*	G	138	A	139	C	140	C	141	cWW	ncWW		ncWW	cWW
31	IL_1D4R_001	1D4R	0.2648	0	Tandem non-canonical cWW pairs	A+B	29-MER OF MODIFIED SRP RNA HELIX 6	G	4	A	5	C	6	C	7	*	G	22	A	23	C	24	C	25	cWW	cWW		cWWa	cWW
32	IL_1GID_001	1GID	0.3027	1		A	P4-P6 RNA RIBOZYME DOMAIN	A	214	G	215	C	216	C	217	*	G	103	A	104	A	105	U	107	cWW	cWW		cWW	cWW
33	IL_1GID_008	1GID	0.2962	1		B	P4-P6 RNA RIBOZYME DOMAIN	A	214	G	215	C	216	C	217	*	G	103	A	104	A	105	U	107	cWW	cWW		cWW	cWW
34	IL_4A1B_127	4A1B	0.3751	0		1	26S RRNA	U	3260	U	3261	U	3262	G	3263	*	C	3271	U	3272	U	3273	A	3274	cWW	cwW		cwW	cWW
35	IL_1S72_018	1S72	0.2883	0		0	LSU rRNA	C	558	U	559	C	560	G	561	*	C	596	A	597	C	598	G	599	cWW	cWW		ncWW	cWW
36	IL_4EYA_010	4EYA	0.3447	0	Tandem non-canonical cWW pairs	m+n	RNA (12-mer)	C	6	U	7	U	8	G	9	*	C	6	U	7	U	8	G	9	cWW	ncwW		ncwW	ncWW
37	IL_4EYA_008	4EYA	0.3211	0	Tandem non-canonical cWW pairs	l+k	RNA (12-mer)	C	6	U	7	U	8	G	9	*	C	6	U	7	U	8	G	9	cWW	ncwW		ncwW	cWW
38	IL_1S72_012	1S72	0.0000	0		0	LSU rRNA	C	287	A	288	G	289	C	290	*	G	362	A	363	C	364	G	365	cWW	ncWW		ncWW	cWW
39	IL_4A1B_103	4A1B	0.2218	0		1	26S RRNA	U	2724	A	2725	C	2726	A	2727	*	U	2707	U	2708	G	2709	A	2710	cWW	cWW		cWW	cWW
40	IL_2QBG_041	2QBG	0.2447	0		B	23S rRNA	C	1114	G	1115	G	1116	C	1117	*	G	1038	A	1039	A	1040	G	1041	cWW	cWW		cWW	cWW
41	IL_3U5H_106	3U5H	0.2694	0		5	25S rRNA	U	2735	A	2736	C	2737	A	2738	*	U	2718	U	2719	G	2720	A	2721	cWW	cWW			cWW
42	IL_2XZM_045	2XZM	0.3592	1		A	18S RRNA	C	928	A	929	A	930	A	931	*	U	852	G	853	G	855	G	856	cWW	ncWW		cWW	cWW
43	IL_3U5F_048	3U5F	0.3719	1		6	18S rRNA	C	950	A	951	A	952	G	953	*	C	874	G	875	G	877	G	878	cWW	cWW		cWW	cWW
44	IL_3U5F_083	3U5F	0.5253	2		6	18S rRNA	C	1644	G	1645	C	1646	U	1647	*	A	1753	A	1754			G	1757	cWW			ntWW	cWW
45	IL_2AW7_036	2AW7	0.4460	1		A	16S ribosomal RNA	U	740	G	741	G	742	A	743	*	U	662	A	663	G	664	G	666	cWW	ncWw		cWW	cWW
46	IL_1FJG_029	1FJG	0.4762	1	Tandem non-canonical cWW pairs (H)	A	SSU rRNA	U	740	G	741	G	742	U	743	*	G	662	A	663	G	664	G	666	cWW	cWw		cWW	cWW
47	IL_1G1X_003	1G1X	0.4504	1	Tandem non-canonical cWW pairs	E+D	16S RIBOSOMAL RNA	U	740	G	741	G	742	U	743	*	G	662	A	663	G	664	G	666	cWW	cWw		cWW	cWW
48	IL_1F7Y_003	1F7Y	0.5722	1		B	16S RIBOSOMAL RNA FRAGMENT	U	39	G	40	G	41	U	42	*	G	26	A	27\|\|A	G	28\|\|A	G	30	cWW	ncWw		cWW	cWW
49	IL_2A64_004	2A64	0.8415	2		A	ribonuclease P RNA	U	191	G	192	C	193	C	194	*	G	236	G	237	A	239	A	241	cWW			ncWW	cWW	ncSH

3D structures

Complete motif including flanking bases

Sequence	Counts
CUUG*CUUG	7
GACC*GACC	4
CUUC*GUCG	3
UGGU*GAGAG	3
CGCU*AAAAG	2
GUUA*UUUC	2
UUCU*AUUA	2
UUUG*CUUA	2
GCAC*GGAU	2
AGCC*GAAUU	2
UACA*UUGA	2
GGAC*GUUUU	1
CCAG*CCAG	1
UUUG*CUCA	1
UCUG*CCUA	1
AUUC*GUCU	1
ACAU*AUAU	1
GUCG*CUUC	1
AAUA*UUCU	1
GUAU*AGAC	1
GGUC*GGAC	1
AGUU*AGAU	1
CUCG*CACG	1
CAGC*GACG	1
CGGC*GAAG	1
CAAA*UGGGG	1
CAAG*CGGGG	1
UGGA*UAGAG	1
UGCC*GGUAAA	1

Non-Watson-Crick part of the motif

Sequence	Counts
UU*UU	11
UU*UC	5
AC*AC	4
GG*AGA	4
UC*UU	3
GC*AAA	2
GU*GA	2
CA*GA	2
GC*AAU	2
AC*UG	2
AA*GGG	2
GA*UUU	1
CA*CA	1
CU*CU	1
CA*UA	1
AU*UC	1
UA*GA	1
UC*AC	1
AG*AC	1
GG*AA	1
GC*GUAA	1

Release history

Release	0.7	0.8	0.9	0.10	0.11	0.12	1.0
Date	2013-02-17	2013-02-17	2013-02-17	2013-02-17	2013-02-17	2013-02-17	2013-03-04
Status	Updated, 2 parents	Exact match	Exact match	Exact match	Exact match	Exact match	Exact match

Parent motifs

Parent motif	Common motif instances	Only in IL_41766.2	Only in the parent motif
IL_41766.1 Compare	IL_2NOK_007, IL_2NOK_004, IL_1FJG_029, IL_2PN4_004, IL_3R2D_002, IL_3U5F_049, IL_3U5F_048, IL_2XZM_052, IL_3U5F_083, IL_280D_001, IL_3U5H_134, IL_2AW7_036, IL_3U5F_046, IL_3U5H_043, IL_2QBG_041, IL_3U5F_008, IL_1G1X_003, IL_1JID_002, IL_2XZM_091, IL_3U5F_047, IL_2A64_004, IL_1D4R_001, IL_1D4R_003, IL_2ZJR_040, IL_3U5F_090, IL_402D_001, IL_2XZM_045, IL_2XZM_044, IL_1GID_008, IL_3U5H_135, IL_3U5F_055, IL_4A1B_127, IL_1MFQ_004, IL_4A1B_103, IL_4A1B_047, IL_1S72_018, IL_3U5H_106, IL_2XZM_002, IL_1S72_012, IL_3U5F_078, IL_2XZM_008, IL_1GID_001, IL_1F7Y_003, IL_2XZM_088	IL_4EYA_010, IL_3TZR_003, IL_2O3V_002, IL_4EYA_012, IL_4EYA_008	IL_2QBG_055, IL_2PN4_009, IL_280D_002, IL_422D_001, IL_1UN6_003
IL_13959.1 Compare	IL_2O3V_002	IL_2NOK_007, IL_2NOK_004, IL_1FJG_029, IL_2PN4_004, IL_3U5H_106, IL_3U5F_048, IL_2XZM_052, IL_3U5F_083, IL_280D_001, IL_3U5H_134, IL_3U5F_047, IL_3U5F_046, IL_3U5H_043, IL_2QBG_041, IL_3U5F_008, IL_1G1X_003, IL_1JID_002, IL_3TZR_003, IL_2XZM_091, IL_2AW7_036, IL_2A64_004, IL_1D4R_001, IL_3U5F_055, IL_1D4R_003, IL_4EYA_008, IL_2ZJR_040, IL_3U5F_090, IL_402D_001, IL_2XZM_045, IL_2XZM_044, IL_1GID_008, IL_3U5H_135, IL_3R2D_002, IL_4A1B_127, IL_1MFQ_004, IL_4A1B_103, IL_4A1B_047, IL_1S72_018, IL_3U5F_049, IL_2XZM_002, IL_1S72_012, IL_3U5F_078, IL_2XZM_008, IL_1GID_001, IL_1F7Y_003, IL_4EYA_010, IL_2XZM_088, IL_4EYA_012	IL_2ZJR_057, IL_1SAQ_002, IL_2QBG_088, IL_3U5F_085, IL_4A1B_117, IL_3UXR_087, IL_4A1B_132, IL_3U5H_141, IL_3U5H_120, IL_3U5F_088, IL_3D0U_002, IL_2ZJR_082, IL_1SA9_002, IL_2XZM_004, IL_4A1B_005, IL_2AW7_065, IL_4A1B_007, IL_1S72_098, IL_3DIR_002, IL_2QBG_017, IL_3U5F_013, IL_2IL9_002, IL_1FJG_059, IL_2XZM_089, IL_1SA9_001

Children motifs

Child motif	Common motif instances	Only in IL_41766.2	Only in the child motif
IL_41766.3 Compare	IL_2NOK_007, IL_2NOK_004, IL_1FJG_029, IL_2PN4_004, IL_3R2D_002, IL_3U5F_049, IL_3U5F_048, IL_2XZM_052, IL_3U5F_083, IL_280D_001, IL_3U5F_047, IL_3U5F_046, IL_3U5H_043, IL_2QBG_041, IL_3U5F_008, IL_1G1X_003, IL_4A1B_127, IL_2O3V_002, IL_1F7Y_003, IL_3TZR_003, IL_2XZM_091, IL_2AW7_036, IL_2A64_004, IL_1D4R_001, IL_1D4R_003, IL_4EYA_008, IL_3U5F_090, IL_402D_001, IL_2XZM_045, IL_2XZM_044, IL_1GID_008, IL_3U5H_135, IL_3U5H_134, IL_1JID_002, IL_1MFQ_004, IL_4A1B_103, IL_4A1B_047, IL_1S72_018, IL_3U5H_106, IL_2XZM_002, IL_1S72_012, IL_3U5F_078, IL_2XZM_008, IL_1GID_001, IL_3U5F_055, IL_4EYA_010, IL_2XZM_088, IL_4EYA_012	IL_2ZJR_040	IL_4IOA_041

Annotations: (35)
Tandem non-canonical cWW pairs (11)
Tandem non-canonical cWW pairs (H) (2)
Decoding loop related (1)
Basepair signature: cWW-cWW-cWW-cWW
Heat map statistics: Min 0.08 | Avg 0.49 | Max 1.06

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