Motif IL_47124.1 Version IL_47124.1 of this group appears in releases 0.4 to 0.4

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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		5	break		6		7		8		9		10	1-10	2-9	3-8	4-7	5-6
1	IL_3G78_002	3G78	0.9255	0		A	Group II catalytic intron D1-D4-3	G	113	G	114	A	115	C	116	G	117	*	C	70	U	71	A	72	A	73	C	74	cWW	tSH	ntSH	ntHS	cWW
2	IL_3F1H_051	3F1H	0.8290	0		A	LSU rRNA	C	1370	G	1371	U	1372	A	1373	G	1374	*	U	1357	G	1358	A	1359	A	1360	G	1361	cWW	tSH	ntWH	tHS	cWW
3	IL_3F1H_092	3F1H	0.9241	0		A	LSU rRNA	C	2466	C	2467	G	2468	A	2469	G	2470	*	C	2480	G	2481	G	2482	C	2483	G	2484	cWW	ncWB			cWW
4	IL_2ZJR_071	2ZJR	0.7269	0	Triple sheared (H)	X	LSU rRNA	U	1848	G	1849	G	1850	A	1851	G	1852	*	C	1865	G	1866	A	1867	A	1868	A	1869	cWW	ntSH	ntSH	ntHS	cWW
5	IL_3F1H_015	3F1H	0.8023	0		A	LSU rRNA	C	618\|\|\|B	G	619	G	620	A	621	G	622	*	U	606	U	607	A	608	A	609\|\|\|A	G	609\|\|\|B	cWW	tSH		ntHW	cWW
6	IL_2ZJR_050	2ZJR	0.6981	0		X	LSU rRNA	C	1383	G	1384	C	1385	A	1386	G	1387	*	U	1370	G	1371	A	1372	G	1373	G	1374	cWW	tSH	tWH	tHS	cWW
7	IL_2ZJR_088	2ZJR	0.7570	0	Double sheared with non-canonical cWW (H)	X	LSU rRNA	C	2445	C	2446	G	2447	A	2448	G	2449	*	C	2459	G	2460	G	2461	C	2462	G	2463	cWW	cWB		tHS	cWW
8	IL_2ZJR_012	2ZJR	0.6085	0	AAA cross-strand stack (H)	X	LSU rRNA	C	629	G	630	G	631	A	632	G	633	*	U	616	U	617	A	618	A	619	G	620	cWW	tSH			cWW
9	IL_2QWY_007	2QWY	0.5426	0	tSH-tWH-tHS	C	SAM-II riboswitch	C	16	G	17	U	18	A	19	U	20	*	A	46	A	47	A	48	A	49	G	50	cWW	tSH	tWH	tHS	cWW
10	IL_2QWY_001	2QWY	0.3519	0		A	SAM-II riboswitch	C	16	G	17	U	18	A	19	U	20	*	A	46	A	47	A	48	A	49	G	50	cWW	tSH		tHS	cWW
11	IL_1S72_055	1S72	0.3048	0	tSH-tWH-tHS (H)	0	LSU rRNA	G	1542	G	1543	U	1544	C	1545	G	1546	*	U	1639	C	1640	A	1641	A	1642	C	1643	cWW	tSH	tWH	tHS	cWW
12	IL_1S72_021	1S72	0.2821	0	AAA cross-strand stack (H)	0	LSU rRNA	G	679	G	680	G	681	A	682	G	683	*	C	663	U	664	A	665	A	666	C	667	cWW	tSH		ntHW	cWW
13	IL_1FJG_023	1FJG	0.0000	0	tSH-tWH-tHS (H)	A	SSU rRNA	U	580	G	581	U	582	A	583	G	584	*	U	757	G	758	A	759	G	760	G	761	cWW		tWH	tHS	cWW
14	IL_1FJG_033	1FJG	0.2686	0	tSH-tWH-tHS (H)	A	SSU rRNA	G	799	G	800	U	801	A	802	G	803	*	C	779	A	780	A	781	A	782	C	783	cWW	tSH	tWH	tHS	cWW
15	IL_1S72_023	1S72	0.2868	0	tSH-tWH-tHS (H)	0	LSU rRNA	C	705	G	706	C	707	A	708	G	709	*	C	719	G	720	A	721	G	722	G	723	cWW	tSH	tWH	tHS	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
CCGAG*CGGCG	2
CGGAG*UUAAG	2
CGUAU*AAAAG	2
GGACG*CUAAC	1
CGUAG*UGAAG	1
UGGAG*CGAAA	1
CGCAG*UGAGG	1
GGUCG*UCAAC	1
GGGAG*CUAAC	1
UGUAG*UGAGG	1
GGUAG*CAAAC	1
CGCAG*CGAGG	1

Non-Watson-Crick part of the motif

Sequence	Counts
GGA*UAA	3
GUA*AAA	3
CGA*GGC	2
GCA*GAG	2
GAC*UAA	1
GUA*GAA	1
GGA*GAA	1
GUC*CAA	1
GUA*GAG	1

Release history

Release	0.4
Date	2011-12-08
Status	New id, 2 parents

Parent motifs

Parent motif	Common motif instances	Only in IL_47124.1	Only in the parent motif
IL_21490.1 Compare	IL_1S72_055, IL_3F1H_092, IL_2ZJR_050, IL_1FJG_033, IL_1S72_023, IL_2QWY_007, IL_3F1H_051, IL_2ZJR_088	IL_2ZJR_012, IL_3F1H_015, IL_1S72_021, IL_1FJG_023, IL_3G78_002, IL_2ZJR_071, IL_2QWY_001
IL_43241.1 Compare	IL_2ZJR_012, IL_3F1H_015, IL_1S72_021, IL_1FJG_023, IL_3G78_002, IL_2ZJR_071, IL_2QWY_001	IL_1S72_055, IL_3F1H_092, IL_2ZJR_050, IL_1FJG_033, IL_1S72_023, IL_2QWY_007, IL_3F1H_051, IL_2ZJR_088	IL_3F1H_026, IL_3MUR_002

Children motifs

Child motif	Common motif instances	Only in IL_47124.1	Only in the child motif
IL_24982.1 Compare	IL_1S72_055, IL_2ZJR_050, IL_1FJG_033, IL_1FJG_023, IL_1S72_023, IL_2QWY_007, IL_2QWY_001	IL_3F1H_092, IL_3G78_002, IL_2ZJR_012, IL_3F1H_015, IL_1S72_021, IL_2ZJR_088, IL_3F1H_051, IL_2ZJR_071	IL_2XZM_035, IL_2AW7_040, IL_3PYO_049, IL_2QBG_052, IL_2XZM_049, IL_2AW7_030, IL_2QWY_004
IL_80407.1 Compare	IL_2ZJR_071, IL_2ZJR_012, IL_1S72_021	IL_1S72_055, IL_3F1H_092, IL_2ZJR_050, IL_1FJG_033, IL_1FJG_023, IL_1S72_023, IL_2ZJR_088, IL_3F1H_051, IL_2QWY_007, IL_3G78_002, IL_3F1H_015, IL_2QWY_001	IL_2QBG_019, IL_3PYO_015, IL_3O30_034, IL_3MUR_002
IL_94031.1 Compare	IL_2ZJR_088	IL_1S72_055, IL_3F1H_092, IL_2ZJR_050, IL_2ZJR_012, IL_1FJG_033, IL_1S72_021, IL_1FJG_023, IL_1S72_023, IL_2QWY_007, IL_3F1H_051, IL_2ZJR_071, IL_3G78_002, IL_3F1H_015, IL_2QWY_001	IL_1S72_083, IL_2XZM_027, IL_1U6B_002, IL_2QBG_094, IL_2AW7_058
IL_78374.1 Compare	IL_3G78_002	IL_1S72_055, IL_3F1H_092, IL_2ZJR_050, IL_2ZJR_012, IL_1FJG_033, IL_1S72_021, IL_1FJG_023, IL_1S72_023, IL_2QWY_007, IL_3F1H_051, IL_2ZJR_071, IL_2ZJR_088, IL_3F1H_015, IL_2QWY_001	IL_2QBG_068, IL_2QBG_024, IL_3PYO_067, IL_1S72_028, IL_3O58_044, IL_2XZM_092, IL_3O58_085, IL_3IWN_002, IL_2A64_005, IL_2A64_006, IL_3PYO_020

Annotations: (6)
tSH-tWH-tHS (H) (4)
AAA cross-strand stack (H) (2)
tSH-tWH-tHS (1)
Triple sheared (H) (1)
Double sheared with non-canonical cWW (H) (1)
Basepair signature
Heat map statistics: Min 0.21 | Avg 0.58 | Max 1.02

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Coloring options: Nucleotide numbers

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