IL_13959.6

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name for chain		1		2		3		4	break		5		6		7		8	1-8	2-7	3-6	4-5
1	IL_2O3V_002	2O3V	0.8452	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_2IL9_002	2IL9	0.7229	0		M	CrPV IRES	A	6058	A	6059	U	6060	A	6061	*	U	6018	A	6019	U	6020	U	6021	cWW		ncWW	cWW
3	IL_4IOA_058	4IOA	0.2949	0	Double sheared	X	LSU rRNA	U	1530	C	1531	A	1532	G	1533	*	C	1491	A	1492	A	1493	G	1494	cWW		tHS	cWW
4	IL_1VW3_072	1VW3	0.2952	0		A	LSU rRNA	U	2617	A	2618	A	2619	C	2620	*	G	2631	A	2632	A	2633	A	2634	cWW	tSH	tHS	cWW
5	IL_3U5F_013	3U5F	0.3182	0		6	SSU rRNA	C	186	G	187	A	188	C	189	*	G	196	A	197	A	198	G	199	cWW	tSH	tHS	cWW
6	IL_3U5H_120	3U5H	0.2876	2		5	LSU rRNA	C	3004	A	3005	A	3006	U	3007	*	A	3139	G	3140	A	3141	G	3144	cWW	tSH	tHS	cWW
7	IL_4CUV_124	4CUV	0.3069	2		1	LSU rRNA	C	3004	A	3005	A	3006	U	3007	*	A	3139	G	3140	A	3141	G	3144	cWW	ntSH	tHS	cWW
8	IL_4A1B_117	4A1B	0.2818	2		1	LSU rRNA	C	2993	G	2994	A	2995	C	2996	*	G	3128	G	3129	A	3131	G	3133	cWW	tSH	tHS	cWW
9	IL_4BPP_003	4BPP	0.2302	1		A	SSU rRNA	U	37	A	38	A	39	A	40	*	U	458	G	459	C	461	A	462	cWW	tSH	tHS	cWW
10	IL_4CUX_090	4CUX	0.2942	0		2	SSU rRNA	C	1729	A	1730	A	1731	A	1732	*	U	1669	G	1670	A	1671	G	1672	cWW		ntHS	cWW
11	IL_3U5F_088	3U5F	0.2605	0		6	SSU rRNA	C	1729	A	1730	A	1731	A	1732	*	U	1669	G	1670	A	1671	G	1672	cWW	tSH	tHS	cWW
12	IL_4BPP_087	4BPP	0.2117	0		A	SSU rRNA	U	1682	A	1683	A	1684	A	1685	*	U	1640	G	1641	A	1642	A	1643	cWW	tSH	tHS	cWW
13	IL_2QBG_017	2QBG	0.2697	0		B	LSU rRNA	G	536	G	537	A	538	G	539	*	U	554	G	555	A	556	C	557	cWW	tSH	tHS	cWW
14	IL_4IOA_083	4IOA	0.1016	0	Double sheared	X	LSU rRNA	C	2343	G	2344	A	2345	G	2346	*	C	2329	G	2330	A	2331	G	2332	cWW	tSH	tHS	cWW
15	IL_4NVV_085	4NVV	0.0000	0		A	LSU rRNA	C	2376	G	2377	A	2378	G	2379	*	C	2362	G	2363	A	2364	G	2365	cWW	tSH	tHS	cWW
16	IL_2QBG_088	2QBG	0.0815	0		B	LSU rRNA	C	2364	G	2365	A	2366	G	2367	*	C	2350	G	2351	A	2352	G	2353	cWW	tSH	tHS	cWW
17	IL_1SAQ_002	1SAQ	0.1008	0	Double sheared	B+A	RNA (8-mer)	C	111	G	112	A	113	G	114	*	C	103	G	104	A	105	G	106	cWW	tSH	tHS	cWW
18	IL_1SA9_001	1SA9	0.1410	0		B+A	RNA (8-mer)	C	111	G	112	A	113	G	114	*	C	103	G	104	A	105	G	106	cWW	tSH	tHS	cWW
19	IL_3D0U_002	3D0U	0.1607	0	Double sheared	A	Lysine riboswitch	C	67	G	68	A	69	G	70	*	C	16	G	17	A	18	G	19	cWW	tSH	tHS	cWW
20	IL_4A1B_007	4A1B	0.2386	0		1	LSU rRNA	C	162	A	163	A	164	C	165	*	G	254	G	255	A	256	G	257	cWW	tSH	ntHS	cWW
21	IL_4BPP_085	4BPP	0.2322	0		A	SSU rRNA	U	1625	A	1626	A	1627	C	1628	*	G	1697	G	1698	A	1699	A	1700	cWW	tSH	tHS	cWW
22	IL_1FJG_059	1FJG	0.2756	0	Double sheared (H)	A	SSU rRNA	U	1481	G	1482	A	1483	C	1484	*	G	1416	G	1417	A	1418	G	1419	cWW	tSH	tHS	cWW
23	IL_4A1B_005	4A1B	0.2793	0		1	LSU rRNA	C	138	A	139	A	140	C	141	*	G	125	A	126	A	127	G	128	cWW	tSH		cWW
24	IL_1S72_098	1S72	0.3376	0		0	LSU rRNA	C	2873	G	2874	A	2875	G	2876	*	C	2881	G	2882	A	2883	G	2884	cWW	tSH	tHS	cWW
25	IL_4A1B_132	4A1B	0.3378	0		1	LSU rRNA	C	3316	G	3317	A	3318	U	3319	*	A	3300	G	3301	A	3302	G	3303	cWW	tSH	tHS	cWW
26	IL_3U5F_085	3U5F	0.3400	0		6	SSU rRNA	C	1653	G	1654	A	1655	U	1656	*	A	1744	G	1745	A	1746	G	1747	cWW	tSH	tHS	cWW
27	IL_3DIR_002	3DIR	0.4188	0		A	Lysine riboswitch	C	70	G	71	A	72	G	73	*	C	19	G	20	A	21	G	22	cWW	tSH	tHS	cWW
28	IL_4CUX_086	4CUX	0.3513	0		2	SSU rRNA	C	1653	G	1654	A	1655	U	1656	*	A	1744	G	1745	A	1746	G	1747	cWW		ntHS	cWW
29	IL_2AW7_065	2AW7	0.4260	0		A	SSU rRNA	U	1481	G	1482	A	1483	C	1484	*	G	1416	G	1417	A	1418	G	1419	cWW	tSH	tHS	cWW
30	IL_3U5H_141	3U5H	0.5147	0		5	LSU rRNA	C	3360	G	3361	A	3362	U	3363	*	A	3342	G	3343	A	3344	G	3345	cWW	tSH	ntSs	cWW
31	IL_4CUV_147	4CUV	0.6315	0		1	LSU rRNA	C	3360	G	3361	A	3362	U	3363	*	A	3342	G	3343	A	3344	G	3345	cWW		ntSs	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
CGAG*CGAG	8
CGAU*AGAG	5
CAAU*AGAACG	2
CAAA*UGAG	2
UGAC*GGAG	2
CGCU*AAAAG	1
AAUA*UAUU	1
UCAG*CAAG	1
UAAC*GAAA	1
CGAC*GAAG	1
CGAC*GGAAAG	1
UAAA*UGACA	1
UAAA*UGAA	1
GGAG*UGAC	1
CAAC*GGAG	1
UAAC*GGAA	1
CAAC*GAAG	1

Non-Watson-Crick part of the motif

Sequence	Counts
GA*GA	16
AA*GA	5
AA*AA	2
AA*GAAC	2
GC*AAA	1
AU*AU	1
CA*AA	1
GA*AA	1
GA*GAAA	1
AA*GAC	1

Release history

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

Parent motifs

Parent motif	Common motif instances	Only in IL_13959.6	Only in the parent motif
IL_13959.5 Compare	IL_4BPP_003, IL_4IOA_058, IL_1SAQ_002, IL_2QBG_088, IL_3U5F_085, IL_1VW3_072, IL_4A1B_117, IL_4A1B_132, IL_3U5H_141, IL_3U5H_120, IL_3U5F_088, IL_2O3V_002, IL_3D0U_002, IL_4IOA_083, IL_4NVV_085, IL_4A1B_005, IL_1FJG_059, IL_4A1B_007, IL_1S72_098, IL_3DIR_002, IL_2QBG_017, IL_3U5F_013, IL_2IL9_002, IL_4BPP_087, IL_4BPP_085, IL_1SA9_001, IL_2AW7_065	IL_4CUX_086, IL_4CUV_147, IL_4CUV_124, IL_4CUX_090

Children motifs

Child motif	Common motif instances	Only in IL_13959.6	Only in the child motif
IL_13959.7 Compare	IL_4BPP_003, IL_4IOA_058, IL_4CUX_090, IL_4CUV_147, IL_2QBG_088, IL_3U5F_085, IL_1VW3_072, IL_4A1B_117, IL_4A1B_132, IL_3U5H_141, IL_3U5H_120, IL_3U5F_088, IL_3D0U_002, IL_4CUX_086, IL_4IOA_083, IL_1SAQ_002, IL_4A1B_005, IL_1FJG_059, IL_4A1B_007, IL_1S72_098, IL_3DIR_002, IL_2QBG_017, IL_3U5F_013, IL_2IL9_002, IL_4BPP_087, IL_4BPP_085, IL_1SA9_001, IL_2AW7_065, IL_4CUV_124	IL_2O3V_002, IL_4NVV_085	IL_1VX6_121, IL_3J7A_078, IL_4KZD_002, IL_4QCN_086, IL_1VX6_139, IL_1VWW_142, IL_1VWW_157, IL_3J7A_075, IL_1VWW_055, IL_1VX2_003, IL_1VWW_125
IL_19986.1 Compare	IL_2O3V_002	IL_4BPP_003, IL_4IOA_058, IL_4CUX_090, IL_4CUV_147, IL_2QBG_088, IL_3U5F_085, IL_1VW3_072, IL_4A1B_117, IL_4A1B_132, IL_3U5H_141, IL_3U5H_120, IL_3U5F_088, IL_3D0U_002, IL_4CUX_086, IL_4IOA_083, IL_4NVV_085, IL_1SAQ_002, IL_4A1B_005, IL_1FJG_059, IL_4A1B_007, IL_1S72_098, IL_3DIR_002, IL_2QBG_017, IL_3U5F_013, IL_2IL9_002, IL_4BPP_087, IL_4BPP_085, IL_1SA9_001, IL_2AW7_065, IL_4CUV_124	IL_3LOA_001, IL_1VX2_073, IL_4BPP_081, IL_1VX6_136, IL_4CUX_082, IL_3J7A_071, IL_3BNT_005, IL_2AW7_010, IL_3U5F_081, IL_2AW7_061, IL_3BNT_002, IL_1VW3_071, IL_1FJG_008, IL_1FJG_055

Motif IL_13959.6 Version IL_13959.6 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_13959.6 Version IL_13959.6 of this group appears in releases 1.15 to 1.15

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