Motif IL_31555.4 Version IL_31555.4 of this group appears in releases 1.5 to 1.9

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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		9	1-8	1-9	2-6	2-7	2-8	3-6	3-7	4-5
1	IL_3FS0_001	3FS0	0.4073	0	UAA/GAN related	A+B	RNA (10-mer) + RNA (11-mer)	U	46	G	47	A	48	G	49	*	C	-1	G	1	G	2	A	3	A	4	ntSH	cWW		ntHH		tHS		cWW
2	IL_4A1B_120	4A1B	0.3655	2		1	26S RRNA	U	3043	A	3044	A	3046	A	3048	*	U	3073	G	3074	A	3075	A	3076	G	3077		cWW		ntSH		tHS		cWW
3	IL_3FTM_001	3FTM	0.3121	0		A+B	RNA (11-mer) + RNA (12-mer)	U	46	G	47	A	48	G	49	*	C	-1	G	1	G	2	A	3	A	4		cWW		ntSH	ntSH	tHS		cWW
4	IL_4FAW_010	4FAW	0.0000	0		A	Group II catalytic intron D1-D4-1	U	172	G	173	A	174	G	175	*	C	190	A	191	A	192	A	193	G	194		cWW		tSH		tHS		cWW
5	IL_4A1B_026	4A1B	0.1468	0		1	26S RRNA	U	571	G	572	A	573	G	574	*	C	594	A	595	A	596	A	597	A	598		cWW		ntSH	ntSH	tHS		cWW
6	IL_4A1B_022	4A1B	0.2513	0		1	26S RRNA	U	499	G	500	A	501	G	502	*	C	475	A	476	G	477	A	478	G	479		cWW		tSH		ntHS		cWW
7	IL_1X8W_002	1X8W	0.2701	0		A	Tetrahymena ribozyme RNA	U	205	A	206	A	207	C	208	*	G	112	A	113	A	114	A	115	G	116		cWW		ntSH	ncSW	tHS		cWW
8	IL_1GID_010	1GID	0.2771	0		B	P4-P6 RNA RIBOZYME DOMAIN	U	205	A	206	A	207	C	208	*	G	112	A	113	A	114	A	115	G	116		cWW		tSH	ncSW	tHS		cWW
9	IL_1GID_003	1GID	0.3005	0		A	P4-P6 RNA RIBOZYME DOMAIN	U	205	A	206	A	207	C	208	*	G	112	A	113	A	114	A	115	G	116	ncWW	cWW		tSH		tHS		cWW
10	IL_3LOA_001	3LOA	0.6805	0	UAA/GAN variation	A+B	RNA (21-mer) + RNA (23-mer)	G	1401	C	1402	C	1403	C	1404	*	G	1497	U	1498	A	1499	A	1500	C	1501		cWW	ntHS			ncWS	ntSH	cWW
11	IL_3BNT_002	3BNT	0.7742	0	Tandem non-canonical cWW pairs	A	A site of human mitochondrial ribosome	C	6	A	7	C	8	C	9	*	G	14\|\|\|\|4_665	C	15\|\|\|\|4_665	A	16\|\|\|\|4_665	A	17\|\|\|\|4_665	G	18\|\|\|\|4_665		cWW			cWW			cWW
12	IL_3BNT_005	3BNT	0.7743	0	Tandem non-canonical cWW pairs	A	A site of human mitochondrial ribosome	C	6\|\|\|\|4_665	A	7\|\|\|\|4_665	C	8\|\|\|\|4_665	C	9\|\|\|\|4_665	*	G	14	C	15	A	16	A	17	G	18		cWW			cWW			cWW
13	IL_3BNQ_002	3BNQ	0.8400	0		A+B	A site of human mitochondrial ribosome, A chain	C	7	A	8	C	9	C	10	*	G	15	C	16	A	17	A	18	G	19		cWW			cWW			cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
UAAC*GAAAG	3
CACC*GCAAG	3
UGAG*CGGAA	2
UAAAUA*UGAAG	1
UGAG*CAAAG	1
UGAG*CAAAA	1
UGAG*CAGAG	1
GCCC*GUAAC	1

Non-Watson-Crick part of the motif

Sequence	Counts
AA*AAA	3
AC*CAA	3
GA*GGA	2
GA*AAA	2
AAAU*GAA	1
GA*AGA	1
CC*UAA	1

Release history

Release	1.5	1.6	1.7	1.8	1.9
Date	2013-08-03	2013-08-31	2013-09-28	2013-11-05	2013-12-07
Status	Updated, 1 parent	Exact match	Exact match	Exact match	Exact match

Parent motifs

Parent motif	Common motif instances	Only in IL_31555.4	Only in the parent motif
IL_31555.3 Compare	IL_3LOA_001, IL_4A1B_026, IL_1GID_010, IL_1X8W_002, IL_3FTM_001, IL_4A1B_022, IL_3FS0_001, IL_3BNT_005, IL_3BNT_002, IL_3BNQ_002, IL_4A1B_120, IL_1GID_003, IL_4FAW_010		IL_2XZM_041, IL_2XZM_039

Children motifs

Child motif	Common motif instances	Only in IL_31555.4	Only in the child motif
IL_31555.5 Compare	IL_3LOA_001, IL_4A1B_026, IL_1GID_010, IL_1X8W_002, IL_3FTM_001, IL_4A1B_022, IL_3FS0_001, IL_3BNT_005, IL_3BNT_002, IL_4A1B_120, IL_1GID_003, IL_4FAW_010	IL_3BNQ_002	IL_3CUN_001
IL_46301.1 Compare	IL_3BNQ_002	IL_3LOA_001, IL_4A1B_026, IL_1GID_010, IL_1X8W_002, IL_3FTM_001, IL_4A1B_022, IL_3FS0_001, IL_3BNT_005, IL_3BNT_002, IL_4A1B_120, IL_1GID_003, IL_4FAW_010	IL_1NUV_003, IL_1NUV_002, IL_429D_002, IL_2QBG_108, IL_2AW7_010, IL_1FJG_008

Annotations: Tandem non-canonical cWW pairs (2)
UAA/GAN related (1)
UAA/GAN variation (1)
Basepair signature: cWW-cWW-tSH-tHS-cWW
Heat map statistics: Min 0.00 | Avg 0.50 | Max 0.91

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Coloring options: Nucleotide numbers

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