Motif IL_02809.1 Version IL_02809.1 of this group appears in releases 0.7 to 0.12

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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	1-8	2-7	3-6	4-5
1	IL_4ERD_002	4ERD	0.1442	0	Tandem non-canonical cWW pairs	D+C	RNA (22-mer)	U	127	U	128	C	141	G	142	*	U	127	U	128	C	141	G	142	cWW	cWW	cWW	cWW
2	IL_422D_001	422D	0.1372	0	Tandem non-canonical cWW pairs	B+A	RNA (12-mer)	U	19	U	20	C	21	G	22	*	U	7	U	8	C	9	G	10	cWW	cWW	cWW	cWW
3	IL_165D_001	165D	0.0000	0		B+A	DNA/RNA (5'-R(GPCPUPUPCPGPGPCP)-D((BRU))-3')	U	12	U	13	C	14	G	15	*	U	3	U	4	C	5	G	6	cWW	cWW	cWW	cWW
4	IL_1QBP_002	1QBP	0.1533	0	Tandem non-canonical cWW pairs	A+B	RNA (15-mer)	U	7	U	8	C	9	G	10	*	U	22	U	23	C	24	G	25	cWW	cWW	ncWW	cWW
5	IL_3GX5_004	3GX5	0.9095	2		A	RNA (94-MER)	G	82	A	83	A	84	A	85	*	U	64	U	67	G	68	C	69	cWW			cWW
6	IL_4AOB_004	4AOB	0.9267	2	Pseudoknot	A	SAM-I riboswitch	G	82	A	83	A	84	A	85	*	U	64	U	67	G	68	C	69	cWW			cWW
7	IL_3NPB_007	3NPB	0.9200	2		A	TL5 RNA	G	106	G	107	A	108	A	109	*	U	85	A	88	G	89	C	90	cWW			cWW
8	IL_3V7E_009	3V7E	0.9829	2		D	SAM-I riboswitch	G	314	A	315	A	316	A	317	*	U	296	U	299	G	300	C	301	cWW			cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
UUCG*UUCG	4
GAAA*UCCUGC	3
UCCAGC*GGAA	1

Non-Watson-Crick part of the motif

Sequence	Counts
UC*UC	4
AA*CCUG	3
CCAG*GA	1

Release history

Release	0.7	0.8	0.9	0.10	0.11	0.12
Date	2013-02-17	2013-02-17	2013-02-17	2013-02-17	2013-02-17	2013-02-17
Status	> 2 parents	Exact match	Exact match	Exact match	Exact match	Exact match

Parent motifs

Parent motif	Common motif instances	Only in IL_02809.1	Only in the parent motif
IL_59016.1 Compare	IL_1QBP_002, IL_165D_001	IL_4ERD_002, IL_3V7E_009, IL_3NPB_007, IL_3GX5_004, IL_4AOB_004, IL_422D_001	IL_2QBG_046, IL_413D_001, IL_1QBP_005
IL_76831.1 Compare	IL_3NPB_007, IL_3GX5_004	IL_4ERD_002, IL_3V7E_009, IL_422D_001, IL_165D_001, IL_1QBP_002, IL_4AOB_004	IL_1DUQ_001, IL_1CSL_001, IL_1QBP_008, IL_1DUQ_003, IL_1DUQ_005, IL_1DUQ_007
IL_41766.1 Compare	IL_422D_001	IL_4ERD_002, IL_165D_001, IL_3V7E_009, IL_3NPB_007, IL_3GX5_004, IL_1QBP_002, IL_4AOB_004	IL_2NOK_007, IL_2NOK_004, IL_2PN4_009, IL_2PN4_004, IL_3R2D_002, IL_3U5F_049, IL_3U5F_048, IL_280D_002, IL_3U5F_083, IL_280D_001, IL_2AW7_036, IL_3U5F_046, IL_3U5H_043, IL_2QBG_041, IL_3U5F_008, IL_1G1X_003, IL_1JID_002, IL_1FJG_029, IL_1F7Y_003, IL_2XZM_091, IL_3U5F_047, IL_2A64_004, IL_1D4R_001, IL_1D4R_003, IL_2ZJR_040, IL_1UN6_003, IL_3U5F_090, IL_402D_001, IL_2XZM_045, IL_2XZM_044, IL_1GID_008, IL_3U5H_135, IL_3U5H_134, IL_4A1B_127, IL_1MFQ_004, IL_4A1B_103, IL_4A1B_047, IL_1S72_018, IL_3U5H_106, IL_2XZM_002, IL_2QBG_055, IL_1S72_012, IL_3U5F_078, IL_2XZM_008, IL_1GID_001, IL_3U5F_055, IL_2XZM_088, IL_2XZM_052

Children motifs

Child motif	Common motif instances	Only in IL_02809.1	Only in the child motif
IL_02809.2 Compare	IL_4ERD_002, IL_165D_001, IL_3V7E_009, IL_422D_001, IL_3GX5_004, IL_3NPB_007, IL_1QBP_002, IL_4AOB_004		IL_4B5R_004

Annotations: Tandem non-canonical cWW pairs (3)
Pseudoknot (1)
Basepair signature: cWW-cWW-cWW-cWW
Heat map statistics: Min 0.09 | Avg 0.55 | Max 1.02

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Coloring options: Nucleotide numbers

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