Motif IL_68200.1 Version IL_68200.1 of this group appears in releases 1.17 to 1.17

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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	break		3		4	1-4	2-3
1	IL_1XOK_001	1XOK	0.7725	2	Major groove intercalation	A	alfalfa mosaic virus RNA 3' UTR	C	846	U	847	*	A	864	G	867	cWW	cWW
2	IL_1XOK_002	1XOK	0.6781	2	Major groove intercalation	A+B	alfalfa mosaic virus RNA 3' UTR	C	868	C	869	*	G	877	G	880	cWW	cWW
3	IL_387D_001	387D	0.6175	2	Multiple bulged bases	A	RNA Pseudoknot	U	1	C	2	*	G	15	A	18	cWW	cWW
4	IL_4KZD_006	4KZD	0.6750	2	Stack outside cWW	R	RNA (84-MER)	C	30	C	31	*	G	49	G	52	cWW	cWW
5	IL_1U9S_008	1U9S	0.3866	1	Stack outside cWW	A	RNase P class A	G	195	C	196	*	G	217	C	219	cWW	cWW
6	IL_3U5H_031	3U5H	0.2949	1		5	LSU rRNA	G	833	U	834	*	G	859	C	861	cWW	cWW
7	IL_2QBG_022	2QBG	0.0000	1		B	LSU rRNA	G	697	C	698	*	G	763	C	765	cWW	cWW
8	IL_3SNP_002	3SNP	0.0828	1		C	IRE	A	13	C	14	*	G	18	U	20	cWW	cWW
9	IL_3SN2_002	3SN2	0.1088	1	Single bulged C	B	IRE II	G	13	C	14	*	G	18	C	20	cWW	cWW
10	IL_4OO8_002	4OO8	0.1406	1		B	tracrRNA	G	54	C	55	*	G	58	C	60	cWW	cWW
11	IL_4UN5_002	4UN5	0.1422	1		A	tracrRNA	G	54	C	55	*	G	58	C	60	cWW	cWW
12	IL_4UN3_002	4UN3	0.1683	1		A	tracrRNA	G	54	C	55	*	G	58	C	60	cWW	cWW
13	IL_1VWW_139	1VWW	0.5468	2		5	LSU rRNA	C	4458	U	4459	*	A	4517	G	4520	ncWW	cWW
14	IL_1VWW_148	1VWW	0.8768	2		5	LSU rRNA	U	4641	U	4642	*	A	4655	G	4658	ncWW	cWW
15	IL_4IOA_092	4IOA	0.8006	2	Multiple bulged bases	X	LSU rRNA	C	2491	G	2492	*	C	2550	G	2553	cWW	cWW
16	IL_4QCN_095	4QCN	0.8160	2		A	LSU rRNA	C	2524	G	2525	*	C	2583	G	2586	cWW	cWW
17	IL_2QBG_097	2QBG	0.9163	2		B	LSU rRNA	C	2512	A	2513	*	U	2571	G	2574	cWW	cWW
18	IL_1VW3_080	1VW3	0.8822	2		A	LSU rRNA	C	2778	A	2779	*	U	2838	G	2841	cWW	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
GC*GUC	3
CG*CACG	2
CA*UACG	2
CU*AAUG	1
CC*GAUG	1
UC*GGAA	1
CC*GUUG	1
GC*GGC	1
GU*GGC	1
GC*GAC	1
AC*GUU	1
GC*GCC	1
CU*AACG	1
UU*AAUG	1

Non-Watson-Crick part of the motif

Sequence	Counts
*AC	5
*U	4
*AU	3
*G	2
*GA	1
*UU	1
*A	1
*C	1

Release history

Release	1.17
Date	2014-09-04
Status	New id, 2 parents

Parent motifs

Parent motif	Common motif instances	Only in IL_68200.1	Only in the parent motif
IL_03128.1 Compare	IL_2QBG_022, IL_2QBG_097, IL_3SN2_002, IL_1VW3_080, IL_4OO8_002, IL_3SNP_002, IL_3U5H_031, IL_4IOA_092	IL_387D_001, IL_4UN5_002, IL_1VWW_148, IL_1U9S_008, IL_4KZD_006, IL_4QCN_095, IL_4UN3_002, IL_1XOK_001, IL_1VWW_139, IL_1XOK_002	IL_4CUX_030, IL_3U5H_054, IL_4CUV_055, IL_4NVV_094, IL_4IOA_033, IL_2AW7_027
IL_84950.1 Compare	IL_1XOK_001, IL_387D_001, IL_1XOK_002, IL_1U9S_008	IL_4UN5_002, IL_2QBG_022, IL_2QBG_097, IL_4KZD_006, IL_3SN2_002, IL_3U5H_031, IL_4UN3_002, IL_4OO8_002, IL_4QCN_095, IL_1VWW_139, IL_3SNP_002, IL_1VW3_080, IL_4IOA_092, IL_1VWW_148	IL_4IOA_067, IL_1KXK_003, IL_4CUX_087, IL_3U5F_086, IL_4NVV_072

Children motifs

Child motif	Common motif instances	Only in IL_68200.1	Only in the child motif
IL_66381.1 Compare	IL_4UN5_002, IL_2QBG_022, IL_2QBG_097, IL_3SN2_002, IL_3U5H_031, IL_4UN3_002, IL_4OO8_002, IL_4QCN_095, IL_3SNP_002, IL_1VW3_080, IL_4IOA_092	IL_387D_001, IL_1VWW_148, IL_1U9S_008, IL_4KZD_006, IL_1XOK_001, IL_1VWW_139, IL_1XOK_002	IL_4IOA_033, IL_3U5H_054, IL_4W21_154, IL_4CUV_055, IL_1VX6_057, IL_2AW7_027
IL_68638.1 Compare	IL_1XOK_001, IL_387D_001, IL_1XOK_002, IL_1U9S_008, IL_4KZD_006	IL_4UN5_002, IL_1VWW_148, IL_2QBG_022, IL_4QCN_095, IL_1VW3_080, IL_2QBG_097, IL_4UN3_002, IL_4OO8_002, IL_3SN2_002, IL_1VWW_139, IL_3SNP_002, IL_3U5H_031, IL_4IOA_092	IL_2QBG_086, IL_4W21_013, IL_4CUX_087, IL_1KXK_003, IL_4CUV_067, IL_4IOA_067, IL_3U5F_086

Annotations: (11)
Stack outside cWW (2)
Major groove intercalation (2)
Multiple bulged bases (2)
Single bulged C (1)
Basepair signature: cWW-cWW
Heat map statistics: Min 0.05 | Avg 0.59 | Max 1.00

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Coloring options: Nucleotide numbers

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