Motif IL_13730.5 Version IL_13730.5 of this group appears in releases 3.22 to 3.27

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Pairwise interactions
Sequence variants
History

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name		1		2	break		3		4	1-2	1-4	2-3
1	IL_5XWP_001	5XWP	0.5254	2	Multiple bulged bases	C	RNA (59-MER)	G	22	U	25	*	A	5	C	6		cWW	cWW
2	IL_5WTK_001	5WTK	0.4460	2	Multiple bulged bases	B	RNA (58-MER)	G	20	U	23	*	A	3	C	4		cWW	cWW
3	IL_6IV9_001	6IV9	0.2915	2	Multiple bulged bases	B	crRNA (50-MER)	G	-9	U	-6	*	A	-29	C	-28		cWW	cWW
4	IL_5WLH_001	5WLH	0.4059	2	Multiple bulged bases	B	pre-crRNA	C	-7	U	-4	*	A	-23	G	-22		cWW	cWW
5	IL_5W1H_001	5W1H	0.4120	2	Multiple bulged bases	B	mature crRNA	C	-7	U	-4	*	A	-23	G	-22		cWW	cWW
6	IL_6CZR_132	6CZR	0.3474	6	SSU/LSU pseudoknot	1a	SSU rRNA	C	488	C	495	*	G	524	G	525	ncSH	cWW	cWW
7	IL_6CZR_117	6CZR	0.4473	2	Multiple bulged bases	1a	SSU rRNA	C	64	G	67	*	C	97	G	98		cWW	cWW
8	IL_4LFB_005	4LFB	0.5170	2	Multiple bulged bases	A	SSU rRNA	C	63	G	66	*	C	103	G	104		cWW	cWW
9	IL_5J7L_005	5J7L	0.4705	2	Multiple bulged bases	AA	SSU rRNA	C	63	A	66	*	U	103	G	104		cWW	cWW
10	IL_5TBW_085	5TBW	0.3337	2	Major groove intercalation	1	LSU rRNA	U	2241	A	2244	*	U	2200	G	2201		cWW	cWW
11	IL_5J7L_315	5J7L	0.3384	2	Major groove intercalation	DA	LSU rRNA	U	1898	A	1901	*	U	1841	G	1842		cWW	cWW
12	IL_1FUF_002	1FUF	0.3289	2	Multiple bulged bases	A+B	RNA (14-mer)	U	5	C	8	*	G	23	G	24		cWW	cWW
13	IL_1FUF_003	1FUF	0.3262	2	Multiple bulged bases	B+A	RNA (14-mer)	U	19	C	22	*	G	9	G	10		cWW	cWW
14	IL_3MXH_004	3MXH	0.2930	2	Multiple bulged bases	R	c-di-GMP riboswitch	U	81	C	84	*	G	56	G	57		cWW	cWW
15	IL_3IWN_004	3IWN	0.3430	2	Multiple bulged bases	A	C-di-GMP riboswitch	U	76	C	79	*	G	46	G	47		cWW	cWW
16	IL_6CZR_119	6CZR	0.3668	2	Multiple bulged bases	1a	SSU rRNA	U	123	C	126	*	G	227	G	228		cWW	cWW
17	IL_4LFB_007	4LFB	0.2674	2	Multiple bulged bases	A	SSU rRNA	U	129	C	131	*	G	231	G	232		cWW	cWW
18	IL_4IOA_033	4IOA	0.1893	6	SSU/LSU pseudoknot	X	LSU rRNA	U	1015	A	1022	*	U	1161	A	1162		cWW	cWW
19	IL_5TBW_049	5TBW	0.0000	6	SSU/LSU pseudoknot	1	LSU rRNA	U	1173	A	1180	*	U	1325	A	1326		cWW	cWW
20	IL_1U9S_003	1U9S	0.1836	2	Major groove intercalation	A	RIBONUCLEASE P	C	224	A	227	*	U	116	G	117		cWW	cWW
21	IL_1NBS_009	1NBS	0.2760	2	Major groove intercalation	B	RNase P class B	U	228	A	231	*	U	181	G	182		cWW	cWW
22	IL_1KXK_003	1KXK	0.4527	2	Multiple bulged bases	A	ai5g group II Self-splicing intron	U	28	G	29	*	C	42	G	45		cWW	cWW
23	IL_4WF9_103	4WF9	0.3551	2	Multiple bulged bases	X	LSU rRNA	U	2722	U	2723	*	A	2738	G	2741		cWW	cWW
24	IL_5J7L_349	5J7L	0.3497	2	Multiple bulged bases	DA	LSU rRNA	U	2695	U	2696	*	A	2711	G	2714		cWW	cWW
25	IL_3IGI_013	3IGI	0.4332	2	Multiple bulged bases	A	Group IIC intron	U	365	A	366	*	U	375	G	378		cWW	cWW
26	IL_4IOA_092	4IOA	0.5455	2	Multiple bulged bases	X	LSU rRNA	C	2491	G	2492	*	C	2550	G	2553		cWW	cWW
27	IL_4Y4O_273	4Y4O	0.5600	2	Multiple bulged bases	2A	LSU rRNA	C	2512	G	2513	*	C	2571	G	2574		cWW	cWW
28	IL_5TBW_119	5TBW	0.4179	2	Multiple bulged bases	1	LSU rRNA	C	3063	U	3064	*	A	3077	G	3080		cWW	cWW
29	IL_5TBW_109	5TBW	0.5735	2	Multiple bulged bases	1	LSU rRNA	C	2881	U	2882	*	A	2940	G	2943		cWW	cWW
30	IL_4V9F_088	4V9F	0.5686	2	Multiple bulged bases	0	LSU rRNA	C	2547	C	2548	*	G	2606	G	2609		cWW	cWW
31	IL_5TBW_136	5TBW	0.6276	2	Multiple bulged bases	1	LSU rRNA	C	3349	C	3350	*	G	3353	G	3356		ncWW	cWW
32	IL_6JXM_001	6JXM	0.5452	2	Multiple bulged bases	B	tRNA	A	34	C	35	*	G	53	U	56		cWW	cWW
33	IL_6JOO_001	6JOO	0.4061	3		B	Guide RNA	G	57	C	58	*	G	61	C	65		cWW	cWW
34	IL_1R3E_002	1R3E	0.2984	3	Multiple bulged bases	E+D	RNA (17-mer)	G	408	G	412	*	C	415	C	416		cWW	cWW
35	IL_1R3E_001	1R3E	0.2660	3	Multiple bulged bases	D+E	RNA (17-mer)	G	408	G	412	*	C	415	C	416		cWW	cWW
36	IL_4V88_392	4V88	0.5827	2	Multiple bulged bases	A6	SSU rRNA	A	300	A	301	*	U	113	U	116		cWW	cWW
37	IL_4WF9_071	4WF9	0.5107	2	Major groove intercalation	X	LSU rRNA	U	1868	G	1869	*	U	1925	A	1928		cWW	cWW
38	IL_4V9F_067	4V9F	0.4881	2	Major groove intercalation	0	LSU rRNA	U	1897	G	1898	*	U	1939	A	1942		cWW	cWW
39	IL_4V9F_021	4V9F	0.7054	2	Multiple bulged bases	0	LSU rRNA	C	726	G	727	*	C	699	G	702		cWW	cWW
40	IL_4YAZ_008	4YAZ	0.7583	2	Multiple bulged bases	R	Cyclic di-GMP-I riboswitch	G	51	G	52	*	C	64	C	67		cWW	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
UAAA*UG	3
GACU*AC	2
CAAU*AG	2
CGUG*CG	2
UUUC*GG	2
UAGC*GG	2
UGAC*GG	2
CG*CACG	2
GUUCG*CC	2
GUCU*AC	1
CGGCCAAC*GG	1
CGAA*UG	1
UCCCUAAA*UA	1
UGCCGGAA*UA	1
CAAA*UG	1
UG*CACG	1
UU*AUAG	1
UU*ACUG	1
UA*UACG	1
CU*AUUG	1
CU*AACG	1
CC*GUCG	1
CC*GUUG	1
AC*GAUU	1
GC*GUUUC	1
AA*UCGU	1
UG*UAAA	1
UG*UCAA	1
CG*CAUG	1
GG*CAGC	1

Non-Watson-Crick part of the motif

Sequence	Counts
AA*	6
*AC	5
GA*	3
AC*	2
GU*	2
UU*	2
AG*	2
*UU	2
*AU	2
UUC*	2
UC*	1
GGCCAA*	1
CCCUAA*	1
GCCGGA*	1
*UA	1
*CU	1
*UC	1
*UUU	1
*CG	1
*AA	1
*CA	1
*AG	1

Release history

Release	3.22	3.23	3.24	3.25	3.26	3.27
Date	2019-08-23	2019-09-19	2019-10-16	2019-11-13	2019-12-11	2020-01-08
Status	Updated, 1 parent	Exact match	Exact match	Exact match	Exact match	Exact match

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.

Annotations: Multiple bulged bases (30)
Major groove intercalation (6)
SSU/LSU pseudoknot (3)
(1)
Basepair signature: cWW-cWW
Heat map statistics: Min 0.02 | Avg 0.54 | Max 1.09

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Coloring options: Nucleotide numbers

Motif IL_13730.5 Version IL_13730.5 of this group appears in releases 3.22 to 3.27 Download Csv Json

3D structures

Complete motif including flanking bases

Non-Watson-Crick part of the motif

Release history

Parent motifs

Children motifs

Motif IL_13730.5 Version IL_13730.5 of this group appears in releases 3.22 to 3.27

Download

Csv

Json