IL_44540.6

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name		1		2		3	break		4		5	1-2	1-5	2-5	3-4
1	IL_4CUX_068	4CUX	0.7077	0		2	18S RRNA	C	1306	U	1307	G	1308	*	C	1317	G	1318	ncSW	ncWW		cWW
2	IL_4CUX_058	4CUX	0.6459	0		2	18S RRNA	C	1459	A	1460	C	1461	*	G	1178	G	1179	ncSs	cWW		cWW
3	IL_3U5F_062	3U5F	0.5842	0		6	18S rRNA	C	1459	A	1460	C	1461	*	G	1178	G	1179		cWW		cWW
4	IL_4A1B_049	4A1B	0.4771	1		1	26S RRNA	G	1039	C	1041	U	1042	*	A	1062	C	1063		cWW		cWW
5	IL_1X8W_004	1X8W	0.5022	0		A	Tetrahymena ribozyme RNA	G	129	U	130	U	131	*	A	192	C	193	ncSH	cWW		cWW
6	IL_3IWN_001	3IWN	0.4894	0	Minor groove platform	A	C-di-GMP riboswitch	G	89	A	90	U	91	*	A	2	C	3		ncWW		cWW
7	IL_4A1B_128	4A1B	0.3709	0		1	26S RRNA	U	3338	C	3339	U	3340	*	A	3281	A	3282		cWW		cWW
8	IL_2QBG_008	2QBG	0.1837	0		B	23S rRNA	U	434	C	435	C	436	*	G	43	A	44	cSH	cWW		cWW
9	IL_4NVV_003	4NVV	0.3110	0		A	23S Ribosomal RNA	U	461	C	462	C	463	*	G	42	A	43	cSH	cWW		cWW
10	IL_4IOA_003	4IOA	0.3419	0	Minor groove platform	X	LSU rRNA	U	447	C	448	C	449	*	G	42	A	43	cSH	cWW		cWW
11	IL_4BPP_059	4BPP	0.3238	0		A	18S RRNA	C	1430	A	1431	C	1432	*	G	1150	G	1151		cWW	ntHS	cWW
12	IL_1FJG_038	1FJG	0.2522	0	Minor groove platform (H)	A	SSU rRNA	C	1226	A	1227	C	1228	*	G	953	G	954		cWW	ntHS	cWW
13	IL_2AW7_045	2AW7	0.3158	0		A	16S ribosomal RNA	C	1226	A	1227	C	1228	*	G	953	G	954		cWW	ntHS	cWW
14	IL_4IOA_027	4IOA	0.1381	0	Minor groove platform	X	LSU rRNA	U	925	C	926	C	927	*	G	875	A	876	cSH	cWW		cWW
15	IL_1S72_035	1S72	0.0000	0	Minor groove platform (H)	0	LSU rRNA	U	1009	C	1010	C	1011	*	G	956	A	957	cSH	cWW		cWW
16	IL_4NVV_030	4NVV	0.0897	0		A	23S Ribosomal RNA	U	959	C	960	C	961	*	G	909	A	910	cSH	cWW		cWW
17	IL_3U5H_041	3U5H	0.2423	0		5	25S rRNA	U	1050	U	1051	U	1052	*	A	997	A	998		cWW	tHS	cWW
18	IL_4CUV_044	4CUV	0.2282	0		1	25S RRNA	U	1050	U	1051	U	1052	*	A	997	A	998		cWW	ntHS	cWW
19	IL_3U5F_029	3U5F	0.2357	0		6	18S rRNA	A	518	C	519	A	520	*	U	532	U	533		cWW	ntHS	cWW
20	IL_4CUX_029	4CUX	0.2748	0		2	18S RRNA	A	518	C	519	A	520	*	U	532	U	533		cWW	ntHS	cWW
21	IL_1Y0Q_003	1Y0Q	0.2223	0	Minor groove platform	A	Group I catalytic intron	A	120	C	121	G	122	*	C	192	U	193		cWW	ntHS	cWW
22	IL_1U6B_007	1U6B	0.2699	0	Minor groove platform	B	197-MER	G	128	A	129	G	130	*	C	177	C	178	cSH	cWW	tHS	cWW
23	IL_2QBG_081	2QBG	0.2327	1		B	23S rRNA	U	2438	C	2440	U	2441	*	A	2070	A	2071	cSH	cWW		cWW
24	IL_4A1B_096	4A1B	0.2450	1		1	26S RRNA	U	2795	C	2797	C	2798	*	G	2407	A	2408	cSH	cWW		cWW
25	IL_3U5H_099	3U5H	0.2556	1		5	25S rRNA	U	2807	C	2809	C	2810	*	G	2412	A	2413	cSH	cWW		cWW
26	IL_4IOA_076	4IOA	0.2415	1	Minor groove platform	X	LSU rRNA	U	2417	C	2419	C	2420	*	G	2053	A	2054	cSH	cWW		cWW
27	IL_1S72_075	1S72	0.2268	1	Minor groove platform (H)	0	LSU rRNA	U	2473	C	2475	C	2476	*	G	2111	A	2112	cSH	cWW		cWW
28	IL_4NVV_081	4NVV	0.2184	1		A	23S Ribosomal RNA	U	2450	C	2452	C	2453	*	G	2092	A	2093	cSH	cWW		cWW
29	IL_4CUV_102	4CUV	0.2343	1		1	25S RRNA	U	2807	C	2809	C	2810	*	G	2412	A	2413	ncSH	cWW		cWW
30	IL_1VW3_065	1VW3	0.3467	1		A	21S ribosomal RNA	U	2704	C	2706	G	2707	*	C	1970	A	1971	cSH	cWW		cWW
31	IL_2QWY_006	2QWY	0.3922	0		B	SAM-II riboswitch	U	40	A	41	G	42	*	C	23	A	24		cWW		cWW
32	IL_2GDI_007	2GDI	0.4082	0		Y	TPP riboswitch	C	23	C	24	U	25	*	A	35	G	36	ncSH	cWW		cWW
33	IL_2GDI_003	2GDI	0.3701	0	Minor groove platform	X	TPP riboswitch	C	23	C	24	U	25	*	A	35	G	36	ncSH	cWW		cWW
34	IL_1S72_033	1S72	0.5849	0	Single bulged A (H)	0	LSU rRNA	U	942	A	943	G	944	*	C	1023	G	1024	ncSH	cWW		cWW
35	IL_3RW6_001	3RW6	0.5092	1	Minor groove platform	H	constitutive transport element(CTE)of Mason-Pfizer monkey virus RNA	U	53	A	55	U	56	*	A	7	A	8	ncSH	cWW		cWW
36	IL_2AW7_035	2AW7	0.4232	0		A	16S ribosomal RNA	A	746	A	747	G	748	*	C	658	U	659		cWW		cWW
37	IL_1FJG_051	1FJG	0.6164	0	Not an internal loop (H)	A	SSU rRNA	G	1274	A	1275	G	1276	*	C	1259	C	1260			ntHS	cWW
38	IL_4NVV_073	4NVV	0.5079	1		A	23S Ribosomal RNA	G	1877	A	1879	G	1880	*	C	1915	C	1916		cWW	ncWS	cWW
39	IL_2AW7_067	2AW7	0.4645	0		A	16S ribosomal RNA	U	1440	A	1441	G	1442	*	C	1460	G	1461		cWW	tHS	cWW
40	IL_2QWY_003	2QWY	0.4019	0		A	SAM-II riboswitch	U	40	A	41	G	42	*	C	23	A	24		cWW	tHS	cWW
41	IL_4BPP_069	4BPP	0.3044	0		A	18S RRNA	C	1278	U	1279	G	1280	*	C	1289	G	1290	cSH	cWW	tHS	cWW
42	IL_3U5F_071	3U5F	0.4283	0		6	18S rRNA	C	1306	U	1307	G	1308	*	C	1317	G	1318	cSH	cWW	tHS	cWW
43	IL_4CUX_028	4CUX	0.3626	0		2	18S RRNA	U	533	A	534	A	535	*	U	517	A	518		cWW	tHS	cWW
44	IL_4A1B_020	4A1B	0.3724	0		1	26S RRNA	C	470	A	471	C	472	*	G	506	G	507		ncWW	ntHS	cWW
45	IL_4BPP_005	4BPP	0.5332	0		A	18S RRNA	C	49	A	50	U	51	*	A	420	G	421		cWW	tHS	cWW
46	IL_2AW7_004	2AW7	0.5992	0		A	16S ribosomal RNA	C	54	A	55	U	56	*	A	356	G	357		cWW	tHS	cWW
47	IL_1FJG_004	1FJG	0.5862	0	Minor groove platform (H)	A	SSU rRNA	C	54	A	55	U	56	*	A	356	G	357		cWW	tHS	cWW
48	IL_3U5F_005	3U5F	0.5405	0		6	18S rRNA	C	50	A	51	U	52	*	A	428	G	429		cWW	tHS	cWW
49	IL_1FJG_052	1FJG	0.6077	0		A	SSU rRNA	C	1260	A	1261	C	1262	*	G	1273	G	1274			tHS	cWW
50	IL_2AW7_050	2AW7	0.6403	2		A	16S ribosomal RNA	U	1199	U	1202	C	1203	*	G	1057	G	1058		cWW	tHS	cWW
51	IL_1FJG_042	1FJG	0.6760	2	Minor groove platform (H)	A	SSU rRNA	U	1199	G	1202	C	1203	*	G	1057	G	1058		cWW	tHS	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
CAC*GG	7
UCC*GA	6
UACC*GA	6
CAU*AG	4
CUG*CG	3
UUU*AA	2
ACA*UU	2
GAG*CC	2
UAG*CA	2
CCU*AG	2
UAG*CG	2
GACU*AC	1
GUU*AC	1
GAU*AC	1
UCU*AA	1
ACG*CU	1
UACU*AA	1
UACG*CA	1
UAAU*AA	1
AAG*CU	1
GAAG*CC	1
UAA*UA	1
UCAUC*GG	1
UCAGC*GG	1

Non-Watson-Crick part of the motif

Sequence	Counts
A*	20
C*	12
AC*	9
U*	6
AA*	2
CAU*	1
CAG*	1

Release history

Release	1.15
Date	2014-06-20
Status	Updated, 1 parent

Parent motifs

Parent motif	Common motif instances	Only in IL_44540.6	Only in the parent motif
IL_44540.5 Compare	IL_2QBG_081, IL_4BPP_069, IL_2AW7_050, IL_1FJG_004, IL_4IOA_076, IL_2QBG_008, IL_2AW7_004, IL_2QWY_006, IL_1FJG_042, IL_2GDI_007, IL_2QWY_003, IL_2AW7_035, IL_2GDI_003, IL_1VW3_065, IL_3U5F_029, IL_3U5F_062, IL_1Y0Q_003, IL_4NVV_003, IL_4BPP_005, IL_4BPP_059, IL_3IWN_001, IL_1FJG_038, IL_4NVV_081, IL_2AW7_045, IL_1X8W_004, IL_3U5H_041, IL_4A1B_020, IL_2AW7_067, IL_4A1B_049, IL_4A1B_128, IL_1FJG_052, IL_1FJG_051, IL_1S72_075, IL_4IOA_027, IL_3RW6_001, IL_4IOA_003, IL_1S72_033, IL_1U6B_007, IL_3U5F_071, IL_1S72_035, IL_4NVV_073, IL_3U5F_005, IL_4NVV_030, IL_4A1B_096, IL_3U5H_099	IL_4CUX_068, IL_4CUV_102, IL_4CUV_044, IL_4CUX_028, IL_4CUX_029, IL_4CUX_058

Children motifs

Child motif	Common motif instances	Only in IL_44540.6	Only in the child motif
IL_44540.7 Compare	IL_4CUV_102, IL_4CUV_044, IL_2QBG_081, IL_4BPP_069, IL_2AW7_050, IL_1FJG_004, IL_4IOA_076, IL_2QBG_008, IL_2AW7_004, IL_2QWY_006, IL_1FJG_042, IL_2GDI_007, IL_2QWY_003, IL_2AW7_035, IL_2GDI_003, IL_1VW3_065, IL_4CUX_068, IL_3U5F_062, IL_1Y0Q_003, IL_4BPP_005, IL_4CUX_028, IL_4CUX_029, IL_4BPP_059, IL_3IWN_001, IL_1FJG_038, IL_2AW7_045, IL_3U5F_029, IL_4A1B_020, IL_2AW7_067, IL_4A1B_049, IL_4A1B_128, IL_1FJG_052, IL_1FJG_051, IL_1S72_075, IL_4IOA_027, IL_3RW6_001, IL_4IOA_003, IL_1S72_033, IL_1U6B_007, IL_3U5F_071, IL_1S72_035, IL_3U5H_041, IL_3U5F_005, IL_4A1B_096, IL_4CUX_058, IL_3U5H_099	IL_4NVV_073, IL_4NVV_003, IL_4NVV_081, IL_1X8W_004, IL_4NVV_030	IL_1VWW_069, IL_4QCN_069, IL_3J7A_031, IL_4QCN_077, IL_4QCN_003, IL_3J7A_004, IL_1VX2_055, IL_1VWW_043, IL_3J7A_060, IL_4QCN_028, IL_1VX6_046, IL_1VX6_092, IL_1VX6_101, IL_1VWW_124, IL_1VWW_015, IL_3J7A_055
IL_98016.1 Compare	IL_1X8W_004	IL_4CUV_102, IL_4CUV_044, IL_2QBG_081, IL_4BPP_069, IL_2AW7_050, IL_1FJG_004, IL_4IOA_076, IL_2QBG_008, IL_2AW7_004, IL_2QWY_006, IL_1FJG_042, IL_2GDI_007, IL_2QWY_003, IL_2AW7_035, IL_2GDI_003, IL_1VW3_065, IL_4CUX_068, IL_3U5F_062, IL_1Y0Q_003, IL_4NVV_003, IL_4BPP_005, IL_4CUX_028, IL_4CUX_029, IL_4BPP_059, IL_3IWN_001, IL_1FJG_038, IL_4NVV_081, IL_2AW7_045, IL_3U5F_029, IL_4A1B_020, IL_2AW7_067, IL_4A1B_049, IL_4A1B_128, IL_1FJG_052, IL_1FJG_051, IL_1S72_075, IL_4IOA_027, IL_3RW6_001, IL_4IOA_003, IL_1S72_033, IL_1U6B_007, IL_3U5F_071, IL_1S72_035, IL_4NVV_073, IL_3U5H_041, IL_3U5F_005, IL_4NVV_030, IL_4A1B_096, IL_4CUX_058, IL_3U5H_099	IL_2QBG_032, IL_1KXK_001, IL_4A1B_032, IL_1VX2_009, IL_1VW3_026, IL_4IOA_094

Motif IL_44540.6 Version IL_44540.6 of this group appears in releases 1.15 to 1.15 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_44540.6 Version IL_44540.6 of this group appears in releases 1.15 to 1.15

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Csv

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