Motif IL_55938.6 Version IL_55938.6 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 for chain		1		2		3		4	break		5		6		7	1-7	2-3	2-6	3-6	4-5
1	IL_4CUV_063	4CUV	0.3479	1		1	25S RRNA	G	1262	G	1264	U	1265	G	1266	*	C	1275	U	1276	C	1277	cWW	cSH		ncWw	ncWW
2	IL_3U5H_061	3U5H	0.2287	1		5	25S rRNA	G	1262	G	1264	U	1265	G	1266	*	C	1275	U	1276	C	1277	cWW	cSH		cWw	cWW
3	IL_1S72_029	1S72	0.1422	0	Major groove platform with extra cWW (H)	0	LSU rRNA	G	830	U	831	U	832	G	833	*	C	849	U	850	C	851	cWW	cSH		cWw	cWW
4	IL_4IOA_018	4IOA	0.0923	0		X	LSU rRNA	G	751	G	752	U	753	G	754	*	C	769	U	770	C	771	cWW	cSH	ntSH	cWw	cWW
5	IL_4NVV_024	4NVV	0.0000	0		A	23S Ribosomal RNA	G	785	G	786	U	787	G	788	*	C	803	U	804	C	805	cWW	cSH		cWw	cWW
6	IL_4A1B_038	4A1B	0.1559	0		1	26S RRNA	G	894	A	895	U	896	A	897	*	U	913	U	914	C	915	cWW	cSH		cWw	cWW
7	IL_4CUV_036	4CUV	0.1546	0		1	25S RRNA	G	869	G	870	U	871	U	872	*	A	888	U	889	C	890	cWW	cSH	ntSH	cWw	cWW
8	IL_3U5H_033	3U5H	0.1660	0		5	25S rRNA	G	869	G	870	U	871	U	872	*	A	888	U	889	C	890	cWW	cSH		cWw	cWW
9	IL_1VW3_020	1VW3	0.1714	0		A	21S ribosomal RNA	G	629	G	630	U	631	U	632	*	A	647	U	648	C	649	cWW	cSH		cWw	cWW
10	IL_4BPP_014	4BPP	0.2165	1		A	18S RRNA	U	256	G	257	U	259	C	260	*	G	199	U	200	A	201	cWW	ncSH		cWw	cWW
11	IL_3U5F_014	3U5F	0.2188	1		6	18S rRNA	U	259	U	261	U	262	C	263	*	G	204	U	205	A	206	cWW	cSH		cWw	cWW
12	IL_1S72_082	1S72	0.2444	1		0	LSU rRNA	G	2524	G	2525	U	2527	U	2528	*	G	2494	U	2495	C	2496	cWW	cSH		cWw	cWW
13	IL_3U5H_111	3U5H	0.4101	1		5	25S rRNA	U	2858	U	2859	U	2861	U	2862	*	G	2828	U	2829	G	2830	cWW			cWw	cWW
14	IL_4A1B_109	4A1B	0.3949	1		1	26S RRNA	U	2846	U	2847	U	2849	U	2850	*	G	2816	U	2817	G	2818	cWW			cWw	cWW
15	IL_4CUV_115	4CUV	0.4218	1		1	25S RRNA	U	2858	U	2859	U	2861	U	2862	*	G	2828	U	2829	G	2830	ncWW			cWw	cWW
16	IL_4CUX_014	4CUX	0.3593	1		2	18S RRNA	U	259	U	261	U	262	C	263	*	G	204	U	205	A	206	ncWW			cWw	cWW
17	IL_1S72_003	1S72	0.4450	0	Major groove platform with extra cWW (H)	0	LSU rRNA	C	440	A	441	A	442	C	443	*	G	39	C	40	G	41	cWW	cSH	cWWa	ncWW	cWW
18	IL_2QBZ_004	2QBZ	0.4937	0		X	M-Box RNA, ykoK riboswitch aptamer	C	33	U	34	C	35	C	36	*	G	149	U	150	G	151	cWW	cSH	cwW		cWW
19	IL_3P49_006	3P49	0.7151	1		A	Glycine riboswitch	C	34	G	35	A	37	G	38	*	C	51	A	52	G	53	ncWW			ntHS	ncWW
20	IL_3P49_009	3P49	0.7367	1		A	Glycine riboswitch	C	109	G	110	A	112	G	113	*	C	142	A	143	G	144	ncWW			ntHS	cWW
21	IL_1XJR_001	1XJR	0.7348	1	Isolated basepair with bulged bases	A	s2m RNA	C	9	C	10	A	12	G	13	*	C	39	A	40	G	41	cWW				cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
GGUU*AUC	3
UUUUU*GUG	3
GAGUG*CUC	2
GGUG*CUC	2
CGAAG*CAG	2
GUUG*CUC	1
GAUA*UUC	1
UGAUC*GUA	1
UUUUC*GUA	1
GGCUU*GUC	1
GUA*UUUUC	1
CAAC*GCG	1
CUCC*GUG	1
CCGAG*CAG	1

Non-Watson-Crick part of the motif

Sequence	Counts
GU*U	5
UUU*U	4
AGU*U	2
GAA*A	2
UU*U	1
AU*U	1
GAU*U	1
GCU*U	1
U*UUU	1
AA*C	1
UC*U	1
CGA*A	1

Release history

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

Parent motifs

Parent motif	Common motif instances	Only in IL_55938.6	Only in the parent motif
IL_55938.5 Compare	IL_4A1B_038, IL_1XJR_001, IL_1S72_029, IL_3U5F_014, IL_2QBZ_004, IL_1S72_003, IL_4BPP_014, IL_1VW3_020, IL_3U5H_061, IL_3U5H_111, IL_1S72_082, IL_4NVV_024, IL_3U5H_033, IL_3P49_006, IL_3P49_009, IL_4IOA_018, IL_4A1B_109	IL_4CUV_063, IL_4CUV_036, IL_4CUX_014, IL_4CUV_115

Children motifs

Child motif	Common motif instances	Only in IL_55938.6	Only in the child motif
IL_55938.7 Compare	IL_4A1B_038, IL_4CUV_036, IL_4CUV_063, IL_1S72_029, IL_3U5F_014, IL_2QBZ_004, IL_1S72_003, IL_4BPP_014, IL_4CUX_014, IL_1XJR_001, IL_3U5H_061, IL_3U5H_111, IL_1VW3_020, IL_4A1B_109, IL_3U5H_033, IL_3P49_006, IL_3P49_009, IL_4IOA_018, IL_1S72_082, IL_4CUV_115	IL_4NVV_024	IL_1VX6_112, IL_1VWW_088, IL_4QCN_091, IL_1VWW_064, IL_4QCN_022, IL_1VX6_039, IL_1VWW_120

Annotations: (18)
Major groove platform with extra cWW (H) (2)
Isolated basepair with bulged bases (1)
Basepair signature: cWW-cSH-cWW-cWW
Heat map statistics: Min 0.09 | Avg 0.42 | Max 0.88

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Coloring options: Nucleotide numbers

Motif IL_55938.6 Version IL_55938.6 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_55938.6 Version IL_55938.6 of this group appears in releases 1.15 to 1.15

Download

Csv

Json