Motif IL_03728.1 Version IL_03728.1 of this group appears in releases 0.5 to 0.5

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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	3-6	4-5
1	IL_2XZM_004	2XZM	0.2409	1		A	18S RRNA	U	458	G	459	C	461	A	462	*	U	37	A	38	A	39	A	40	cWW	tSH	tHS	cWW
2	IL_3D0U_002	3D0U	0.2589	0	Double sheared	A	Lysine Riboswitch RNA	C	16	G	17	A	18	G	19	*	C	67	G	68	A	69	G	70	cWW	tSH	tHS	cWW
3	IL_3DIR_002	3DIR	0.1638	0		A	RNA (174-MER)	C	70	G	71	A	72	G	73	*	C	19	G	20	A	21	G	22	cWW	tSH	tHS	cWW
4	IL_2QBZ_003	2QBZ	0.1049	1		X	M-Box RNA, ykoK riboswitch aptamer	U	28	G	29	A	30	G	31	*	U	153	A	154	A	156	G	157	cWW	tSH	tHS	cWW
5	IL_1SAQ_002	1SAQ	0.0000	0	Double sheared	A+B	RNA (8-mer)	C	103	G	104	A	105	G	106	*	C	111	G	112	A	113	G	114	cWW	tSH	tHS	cWW
6	IL_1FJG_059	1FJG	0.1321	0		A	SSU rRNA	G	1416	G	1417	A	1418	G	1419	*	U	1481	G	1482	A	1483	C	1484	cWW	tSH	tHS	cWW
7	IL_3O30_087	3O30	0.1358	0		1	18S ribosomal RNA	C	1653	G	1654	A	1655	U	1656	*	A	1744	G	1745	A	1746	G	1747	cWW	ntSH	ntHS	cWW
8	IL_2ZJR_082	2ZJR	0.1555	0		X	LSU rRNA	C	2329	G	2330	A	2331	G	2332	*	C	2343	G	2344	A	2345	G	2346	cWW	ntSH	ntHS	cWW
9	IL_2ZJR_057	2ZJR	0.1695	0		X	LSU rRNA	U	1530	C	1531	A	1532	G	1533	*	C	1491	A	1492	A	1493	G	1494	cWW	tSH	ntHS	cWW
10	IL_2AW7_065	2AW7	0.2470	0		A	16S ribosomal RNA	G	1416	G	1417	A	1418	G	1419	*	U	1481	G	1482	A	1483	C	1484	cWW	tSH	tHS	cWW
11	IL_3O30_090	3O30	0.2279	0		1	18S ribosomal RNA	U	1669	G	1670	A	1671	G	1672	*	C	1729	A	1730	A	1731	A	1732	cWW	ntSH		cWW
12	IL_2QBG_017	2QBG	0.2804	0		B	23S rRNA	U	554	G	555	A	556	C	557	*	G	536	G	537	A	538	G	539	cWW	tSH	tHS	cWW
13	IL_3PYO_077	3PYO	0.4639	0		A	23S ribosomal RNA	C	2350	G	2351	A	2352	G	2353	*	C	2364	G	2365	A	2366	G	2367	cWW	tSH	tHS	cWW
14	IL_2QBG_088	2QBG	0.3625	0		B	23S rRNA	C	2350	G	2351	A	2352	G	2353	*	C	2364	G	2365	A	2366	G	2367	cWW	tSH	tHS	cWW
15	IL_1S72_098	1S72	0.3680	0		0	LSU rRNA	C	2881	G	2882	A	2883	G	2884	*	C	2873	G	2874	A	2875	G	2876	cWW	tSH	tHS	cWW
16	IL_2XZM_089	2XZM	0.4335	0		A	18S RRNA	U	1640	G	1641	A	1642	A	1643	*	U	1682	A	1683	A	1684	A	1685	cWW	tSH	tHS	cWW
17	IL_1SA9_001	1SA9	0.5167	0		A+B	RNA (8-mer)	C	103	G	104	A	105	G	106	*	C	111	G	112	A	113	G	114	cWW	tSH	tHS	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
CGAG*CGAG	8
GGAG*UGAC	2
UAAA*UGACA	1
UGAG*UAAAG	1
CGAU*AGAG	1
UCAG*CAAG	1
UGAG*CAAA	1
UGAC*GGAG	1
UGAA*UAAA	1

Non-Watson-Crick part of the motif

Sequence	Counts
GA*GA	12
GA*AA	2
AA*GAC	1
GA*AAA	1
CA*AA	1

Release history

Release	0.5
Date	2011-12-08
Status	New id, 1 parent

Parent motifs

Parent motif	Common motif instances	Only in IL_03728.1	Only in the parent motif
IL_05994.1 Compare	IL_2QBZ_003, IL_2ZJR_057, IL_1SAQ_002, IL_1FJG_059, IL_3D0U_002, IL_2ZJR_082, IL_1SA9_001, IL_1S72_098, IL_3DIR_002	IL_3O30_087, IL_2XZM_004, IL_3O30_090, IL_3PYO_077, IL_2QBG_088, IL_2AW7_065, IL_2XZM_089, IL_2QBG_017	IL_3F1H_086, IL_1SA9_002

Children motifs

Child motif	Common motif instances	Only in IL_03728.1	Only in the child motif
IL_13959.1 Compare	IL_2ZJR_057, IL_2XZM_004, IL_1SAQ_002, IL_2AW7_065, IL_2QBG_088, IL_2ZJR_082, IL_1FJG_059, IL_3D0U_002, IL_1SA9_001, IL_1S72_098, IL_2XZM_089, IL_3DIR_002, IL_2QBG_017	IL_2QBZ_003, IL_3O30_087, IL_3O30_090, IL_3PYO_077	IL_3U5F_013, IL_2IL9_002, IL_2O3V_002, IL_3U5F_085, IL_4A1B_005, IL_4A1B_007, IL_1SA9_002, IL_4A1B_117, IL_3UXR_087, IL_4A1B_132, IL_3U5H_141, IL_3U5H_120, IL_3U5F_088
IL_06808.1 Compare	IL_2QBZ_003	IL_2ZJR_057, IL_2XZM_004, IL_3O30_090, IL_3PYO_077, IL_1SAQ_002, IL_2AW7_065, IL_2QBG_088, IL_2ZJR_082, IL_1FJG_059, IL_3D0U_002, IL_1SA9_001, IL_1S72_098, IL_2XZM_089, IL_3DIR_002, IL_3O30_087, IL_2QBG_017

Annotations: Double sheared (2)
Basepair signature
Heat map statistics: Min 0.07 | Avg 0.33 | Max 0.69

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Coloring options: Nucleotide numbers

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