Motif IL_46648.8 Version IL_46648.8 of this group appears in releases 1.15 to 1.15

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Pairwise interactions
Sequence variants
History

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name		1		2		3	break		4		5	1-5	2-3	2-4	3-4
1	IL_3WBM_004	3WBM	0.8524	0	Other IL	Y+X	RNA (25-MER)	G	2	U	3	A	4	*	U	23	C	24	cWW			cWW
2	IL_2QWY_005	2QWY	0.8790	0		B	SAM-II riboswitch	C	43	U	44	A	45	*	U	21	G	22	cWW			cWW
3	IL_4A1B_069	4A1B	0.7430	0		1	26S RRNA	G	1643	A	1644	C	1645	*	G	1849	C	1850	cWW			cWW
4	IL_3U5H_078	3U5H	0.7151	0		5	25S rRNA	G	1776	U	1777	G	1778	*	C	1670	C	1671	cWW			cWW
5	IL_4CUV_077	4CUV	0.7323	0		1	25S RRNA	G	1776	U	1777	G	1778	*	C	1670	C	1671	cWW			cWW
6	IL_4C7O_002	4C7O	0.7207	0	Single stack bend	E	SRP RNA	A	36	U	37	G	38	*	C	8	U	9	cWW			cWW
7	IL_4LCK_003	4LCK	0.4521	1		C	T-BOX RIBOSWITCH STEM I	G	28	A	29	U	31	*	A	77	C	78	cWW			cWW
8	IL_4A1B_114	4A1B	0.1549	1		1	26S RRNA	A	2897	A	2898	G	2900	*	U	2879	U	2880	cWW		ntSH	cWW
9	IL_4CUV_121	4CUV	0.0000	1		1	25S RRNA	U	2909	A	2910	G	2912	*	U	2891	A	2892	cWW			cWW
10	IL_3U5H_117	3U5H	0.1356	1		5	25S rRNA	U	2909	A	2910	G	2912	*	U	2891	A	2892	cWW		tSH	cWW
11	IL_1VW3_081	1VW3	0.1760	1		A	21S ribosomal RNA	G	2807	A	2808	G	2810	*	U	2788	C	2789	cWW			cWW
12	IL_1S72_087	1S72	0.2380	1	Major groove platform with intercalation (H)	0	LSU rRNA	C	2575	A	2576	G	2578	*	U	2557	G	2558	cWW		ntSH	cWW
13	IL_4NVV_095	4NVV	0.2818	1		A	23S Ribosomal RNA	C	2552	A	2553	G	2555	*	U	2534	G	2535	cWW		ntSH	cWW
14	IL_4IOA_093	4IOA	0.3270	1	Major groove platform with intercalation (H)	X	LSU rRNA	C	2519	A	2520	G	2522	*	U	2501	G	2502	cWW		ntSH	cWW
15	IL_2QBG_098	2QBG	0.3282	1		B	23S rRNA	C	2540	A	2541	G	2543	*	U	2522	G	2523	cWW		ntSH	cWW
16	IL_4KQY_004	4KQY	0.4525	1	Minor groove platform	A	SAM-I riboswitch	C	73	A	74	G	76	*	C	49	G	50	cWW	ncSH		cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
CAAG*UG	4
GUG*CC	2
UAAG*UA	2
GUA*UC	1
CUA*UG	1
GAC*GC	1
AUG*CU	1
GAUU*AC	1
AACG*UU	1
GAAG*UC	1
CAAG*CG	1

Non-Watson-Crick part of the motif

Sequence	Counts
AA*	8
U*	5
A*	1
AU*	1
AC*	1

Release history

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

Parent motifs

Parent motif	Common motif instances	Only in IL_46648.8	Only in the parent motif
IL_46648.7 Compare	IL_1VW3_081, IL_4NVV_095, IL_2QBG_098, IL_4KQY_004, IL_4C7O_002, IL_3U5H_078, IL_1S72_087, IL_3WBM_004, IL_4A1B_114, IL_4IOA_093, IL_4LCK_003, IL_3U5H_117, IL_4A1B_069, IL_2QWY_005	IL_4CUV_121, IL_4CUV_077

Children motifs

Child motif	Common motif instances	Only in IL_46648.8	Only in the child motif
IL_67038.1 Compare	IL_1VW3_081, IL_3U5H_117, IL_2QBG_098, IL_1S72_087, IL_4A1B_114, IL_4CUV_121, IL_4IOA_093	IL_4NVV_095, IL_4CUV_077, IL_4KQY_004, IL_4C7O_002, IL_3U5H_078, IL_3WBM_004, IL_4LCK_003, IL_2QWY_005, IL_4A1B_069	IL_1VX6_117, IL_1VW3_063, IL_4CUV_100, IL_4QCN_096, IL_2QBG_079, IL_1VX6_099, IL_3U5H_097, IL_4A1B_094
IL_67828.1 Compare	IL_3U5H_078, IL_4A1B_069, IL_4CUV_077, IL_2QWY_005, IL_4C7O_002	IL_1VW3_081, IL_4NVV_095, IL_2QBG_098, IL_4A1B_114, IL_4KQY_004, IL_1S72_087, IL_3WBM_004, IL_3U5H_117, IL_4IOA_093, IL_4CUV_121, IL_4LCK_003	IL_2QBG_084, IL_1VX6_002, IL_4IOA_056, IL_4CUV_004, IL_3U5H_009, IL_3U5H_004, IL_3U5H_146, IL_2QWY_002, IL_1FJG_046, IL_1O9M_001, IL_2QBG_027, IL_2QBG_029, IL_1S72_005, IL_4QCN_005, IL_1VWW_046, IL_4QCN_024, IL_4A1B_073, IL_4CUV_010, IL_4A1B_018, IL_1VX6_042, IL_4IOA_085, IL_2QBG_090, IL_3J7A_082, IL_1VX2_088, IL_4IOA_021, IL_1ZX7_007, IL_4QCN_088, IL_4CUV_153, IL_2AW7_047, IL_1ZX7_001, IL_3U5H_037, IL_3MOJ_004, IL_4A1B_001, IL_1VW3_030, IL_1S72_079, IL_4IOA_005, IL_2QBG_010, IL_4A1B_042, IL_4IOA_046, IL_1VW3_010, IL_4A1B_009, IL_2AW7_025, IL_2O3X_003, IL_1VWW_096, IL_4GMA_001, IL_4CUV_088, IL_1VWW_011, IL_2AW7_024, IL_1VW3_058, IL_1T0E_001, IL_1VWW_037, IL_1VW3_093, IL_2O3X_001, IL_3T4B_001, IL_1VX2_085, IL_4M30_001
IL_64894.1 Compare	IL_4KQY_004	IL_3U5H_117, IL_4NVV_095, IL_2QBG_098, IL_4A1B_114, IL_4CUV_077, IL_4C7O_002, IL_3U5H_078, IL_1S72_087, IL_3WBM_004, IL_1VW3_081, IL_4IOA_093, IL_4CUV_121, IL_4LCK_003, IL_2QWY_005, IL_4A1B_069	IL_1VWW_112
IL_40987.1 Compare	IL_3WBM_004	IL_1VW3_081, IL_4NVV_095, IL_2QBG_098, IL_4A1B_114, IL_4CUV_077, IL_4KQY_004, IL_4C7O_002, IL_3U5H_078, IL_1S72_087, IL_3U5H_117, IL_4IOA_093, IL_4CUV_121, IL_4LCK_003, IL_2QWY_005, IL_4A1B_069
IL_85010.1 Compare	IL_4LCK_003	IL_1VW3_081, IL_4NVV_095, IL_2QBG_098, IL_4A1B_114, IL_4CUV_077, IL_4KQY_004, IL_4C7O_002, IL_3U5H_078, IL_1S72_087, IL_3WBM_004, IL_3U5H_117, IL_4CUV_121, IL_4IOA_093, IL_2QWY_005, IL_4A1B_069	IL_2AW7_039, IL_4FNJ_003, IL_3J7A_046, IL_1U6B_009

Annotations: (11)
Major groove platform with intercalation (H) (2)
Other IL (1)
Single stack bend (1)
Minor groove platform (1)
Basepair signature: cWW-tSH-cWW
Heat map statistics: Min 0.09 | Avg 0.57 | Max 1.00

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