Motif IL_12582.1 Version IL_12582.1 of this group appears in releases 2.0 to 2.0

Download

Csv

Json

Pairwise interactions
Sequence variants
History

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name for chain		1		2		3		4		5		6		7		8	break		9		10	1-10	5-6	5-7	8-9
1	IL_5A2Q_032	5A2Q	0.3204	0		2	SSU rRNA	A	599	G	600	G	601	G	602	C	603	A	604	A	605	G	606	*	C	636	U	637	cWW	ncSH		cWW
2	IL_3JAM_031	3JAM	0.2885	0		2	SSU rRNA	A	549	G	550	G	551	G	552	C	553	A	554	A	555	G	556	*	C	586	U	587	cWW	ncSH		cWW
3	IL_4BTS_291	4BTS	0.2794	0		DA	SSU rRNA	A	543	G	544	G	545	G	546	C	547	A	548	A	549	G	550	*	C	581	U	582	cWW	cSH		cWW
4	IL_4V88_413	4V88	0.2982	0	SSU/LSU pseudoknot	A6	SSU rRNA	A	550	G	551	G	552	G	553	C	554	A	555	A	556	G	557	*	C	587	U	588	cWW	cSH		cWW
5	IL_3J7A_024	3J7A	0.2784	0	SSU/LSU pseudoknot (H)	A	SSU rRNA	A	557	G	558	G	559	G	560	C	561	A	562	A	563	G	564	*	C	594	U	595	cWW	cSH		cWW
6	IL_4V4Q_204	4V4Q	0.2405	0	SSU/LSU pseudoknot (H)	CA	SSU rRNA	C	504	G	505	G	506	C	507	U	508	A	509	A	510	C	511	*	G	540	G	541	cWW			cWW
7	IL_1FJG_020	1FJG	0.2422	0	SSU/LSU pseudoknot (H)	A	SSU rRNA	C	504	G	505	G	506	C	507	C	508	A	509	A	510	C	511	*	G	540	G	541	cWW	ncSH	ntSW	cWW
8	IL_3J9W_018	3J9W	0.2356	0	SSU/LSU pseudoknot (H)	AA	SSU rRNA	C	513	G	514	G	515	C	516	U	517	A	518	A	519	C	520	*	G	549	G	550	cWW	ncSH	ntSW	cWW
9	IL_4V8P_357	4V8P	0.0000	0		F1	LSU rRNA	C	1200	G	1201	C	1202	C	1203	C	1204	A	1205	A	1206	A	1207	*	U	1352	G	1353	cWW	cSH		cWW
10	IL_4V9F_038	4V9F	0.1614	0	SSU/LSU pseudoknot	0	LSU rRNA	U	1101	C	1102	C	1103	C	1104	C	1105	A	1106	A	1107	G	1108	*	C	1254	A	1255	cWW	cSH		cWW
11	IL_5FDU_037	5FDU	0.1803	0	SSU/LSU pseudoknot (H)	1A	LSU rRNA	C	1050	C	1051	C	1052	C	1053	C	1054	A	1055	A	1056	G	1057	*	C	1196	G	1197	cWW	cSH		cWW
12	IL_4IOA_033	4IOA	0.1909	0	SSU/LSU pseudoknot	X	LSU rRNA	U	1015	C	1016	C	1017	C	1018	U	1019	A	1020	A	1021	A	1022	*	U	1161	A	1162	cWW	cSH		cWW
13	IL_5J7L_278	5J7L	0.2270	0	SSU/LSU pseudoknot	DA	LSU rRNA	U	1004	C	1005	C	1006	C	1007	A	1008	A	1009	A	1010	G	1011	*	C	1150	A	1151	cWW	cSH		cWW
14	IL_3J9W_101	3J9W	0.2678	0	SSU/LSU pseudoknot (H)	BA	LSU rRNA	U	1050	C	1051	C	1052	C	1053	A	1054	A	1055	A	1056	G	1057	*	C	1196	A	1197	cWW	ncSH		cWW
15	IL_4V91_054	4V91	0.3453	0	SSU/LSU pseudoknot (H)	1	LSU rRNA	U	1173	G	1174	C	1175	C	1176	G	1177	G	1178	A	1179	A	1180	*	U	1325	A	1326	cWW	nchH		cWW
16	IL_4V88_295	4V88	0.3468	0	SSU/LSU pseudoknot (H)	A5	LSU rRNA	U	1173	G	1174	C	1175	C	1176	G	1177	G	1178	A	1179	A	1180	*	U	1325	A	1326	cWW	chH		cWW
17	IL_5AN9_008	5AN9	0.3482	0	SSU/LSU pseudoknot (H)	N	LSU rRNA	C	1410	G	1411	U	1412	C	1413	U	1414	A	1415	A	1416	C	1417	*	G	1561	G	1562	cWW			cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
AGGGCAAG*CU	5
CGGCUAAC*GG	2
UCCCAAAG*CA	2
UGCCGGAA*UA	2
CGGCCAAC*GG	1
CGCCCAAA*UG	1
UCCCCAAG*CA	1
CCCCCAAG*CG	1
UCCCUAAA*UA	1
CGUCUAAC*GG	1

Non-Watson-Crick part of the motif

Sequence	Counts
GGGCAA*	5
GGCUAA*	2
CCCCAA*	2
CCCAAA*	2
GCCGGA*	2
GGCCAA*	1
GCCCAA*	1
CCCUAA*	1
GUCUAA*	1

Release history

Release	2.0
Date	2017-04-24
Status	New id, 2 parents

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.

Annotations: SSU/LSU pseudoknot (H) (9)
(4)
SSU/LSU pseudoknot (4)
Basepair signature: cWW-L-L-L-cSH-L-cWW
Heat map statistics: Min 0.08 | Avg 0.28 | Max 0.44

Help

Coloring options: Nucleotide numbers

Copyright 2026 BGSU RNA group. Page generated in 0.412 s