Motif HL_46175.5 Version HL_46175.5 of this group appears in releases 1.16 to 1.17

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Pairwise interactions
Sequence variants
History

#S	Loop id	PDB	Disc	#Non-core	Chain(s)	Standardized name		1		2		3		4		5		6		7		8		9		10	1-10	2-9	2-10	3-8	3-9	4-8
1	HL_1VX6_016	1VX6	0.7506	2	A	28S ribosomal RNA	G	764	A	765	U	767	C	768	U	769	U	770	U	771	A	773	A	774	C	775	cWW	ncwW
2	HL_3R9X_001	3R9X	0.6205	0	C	RNA301	A	1513	G	1514	G	1515	G	1516	G	1517	A	1518	A	1519	C	1520	C	1521	U	1522	cWW	ncWW				ncWW
3	HL_4CUV_028	4CUV	0.7294	0	1	25S RRNA	G	1266	U	1267	G	1268	U	1269	A	1270	A	1271	C	1272	A	1273	A	1274	C	1275	ncWW
4	HL_1VX2_020	1VX2	0.4569	1	2	18S ribosomal RNA	G	1054	A	1055	U	1056	C	1057	A	1058	G	1059	A	1060	A	1062	C	1063	C	1064	cWW	cWB
5	HL_3U5F_023	3U5F	0.3313	1	6	18S rRNA	G	997	A	998	U	999	C	1000	A	1001	G	1002	A	1003	A	1005	C	1006	C	1007	cWW
6	HL_3J7A_020	3J7A	0.3235	1	A	SSU rRNA	G	1066	A	1067	U	1068	C	1069	A	1070	G	1071	A	1072	A	1074	C	1075	C	1076	cWW	ncWB
7	HL_4CUX_023	4CUX	0.3119	1	2	18S RRNA	G	997	A	998	U	999	C	1000	A	1001	G	1002	A	1003	A	1005	C	1006	C	1007	ncWW				ntSH
8	HL_2AW7_017	2AW7	0.0000	1	A	16S ribosomal RNA	G	786	A	787	U	788	U	789	A	790	G	791	A	792	A	794	C	795	C	796	cWW
9	HL_1FJG_017	1FJG	0.1052	1	A	SSU rRNA	G	786	A	787	U	788	U	789	A	790	G	791	A	792	A	794	C	795	C	796	cWW
10	HL_4BPP_022	4BPP	0.1451	1	A	18S RRNA	G	975	A	976	U	977	C	978	A	979	G	980	A	981	A	983	C	984	C	985	cWW
11	HL_1VW3_013	1VW3	0.4563	0	A	21S ribosomal RNA	A	542	A	543	A	544	A	545	A	546	A	547	A	548	U	549	A	550	U	551	cWW	ncwW
12	HL_4A1C_004	4A1C	0.3928	0	2	5.8S RRNA	G	121	U	122	G	123	U	124	A	125	A	126	A	127	A	128	A	129	C	130	cWW	ncWW		ntSH
13	HL_2AW7_015	2AW7	0.3320	0	A	16S ribosomal RNA	C	689	G	690	G	691	U	692	G	693	A	694	A	695	A	696	U	697	G	698	cWW	tSH		tSH
14	HL_1FJG_015	1FJG	0.3493	0	A	SSU rRNA	C	689	G	690	G	691	U	692	G	693	A	694	A	695	A	696	U	697	G	698	cWW	tSH		tSH
15	HL_3J7A_018	3J7A	0.4617	0	A	SSU rRNA	A	969	G	970	G	971	U	972	G	973	A	974	A	975	A	976	U	977	U	978	cWW			tSH
16	HL_4BPP_020	4BPP	0.4853	0	A	18S RRNA	A	878	G	879	G	880	U	881	G	882	A	883	A	884	A	885	U	886	U	887	cWW			tSH
17	HL_3U5F_021	3U5F	0.4758	0	6	18S rRNA	A	900	G	901	G	902	U	903	G	904	A	905	A	906	A	907	U	908	U	909	cWW			ntSH
18	HL_1VX2_019	1VX2	0.5031	0	2	18S ribosomal RNA	A	957	G	958	G	959	U	960	G	961	A	962	A	963	A	964	U	965	U	966			ncHW

3D structures

Complete motif including flanking bases

Sequence	Counts
GAUCAGAUACC	5
AGGUGAAAUU	4
GAUUAGAUACC	2
CGGUGAAAUG	2
GAUUCUUUAAAC	1
AGGGGAACCU	1
GUGUAACAAC	1
AAAAAAAUAU	1
GUGUAAAAAC	1

Non-Watson-Crick part of the motif

Sequence	Counts
GGUGAAAU	6
AUCAGAUAC	5
AUUAGAUAC	2
AUUCUUUAAA	1
GGGGAACC	1
UGUAACAA	1
AAAAAAUA	1
UGUAAAAA	1

Release history

Release	1.16	1.17
Date	2014-07-26	2014-09-06
Status	Updated, 1 parent	Exact match

Parent motifs

Parent motif	Common motif instances	Only in HL_46175.5	Only in the parent motif
HL_46175.4 Compare	HL_4BPP_020, HL_4BPP_022, HL_3R9X_001, HL_1FJG_017, HL_1FJG_015, HL_4CUX_023, HL_1VW3_013, HL_3U5F_023, HL_4A1C_004, HL_3U5F_021, HL_2AW7_017, HL_4CUV_028, HL_2AW7_015	HL_1VX2_020, HL_3J7A_018, HL_1VX2_019, HL_3J7A_020, HL_1VX6_016

Children motifs

Child motif	Common motif instances	Only in HL_46175.5	Only in the child motif
HL_46175.6 Compare	HL_3J7A_018, HL_3U5F_021, HL_4BPP_020, HL_4BPP_022, HL_2AW7_017, HL_3R9X_001, HL_1FJG_017, HL_1VX6_016, HL_4A1C_004, HL_1VW3_013, HL_3U5F_023, HL_4CUX_023, HL_1FJG_015, HL_3J7A_020, HL_4CUV_028, HL_2AW7_015	HL_1VX2_020, HL_1VX2_019	HL_4W23_020

Annotations: (18)
Basepair signature: cWW-R-tSH-R-R-R-R
Heat map statistics: Min 0.08 | Avg 0.49 | Max 0.84

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Coloring options: Nucleotide numbers

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