Motif IL_65553.1 Version IL_65553.1 of this group appears in releases 0.6 to 0.6

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Pairwise interactions
Sequence variants
History

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)		1		2		3		4		5		6		7	break		8		9		10		11		12	1-5	1-12	2-3	2-11	4-11	5-9	5-10	5-12	6-9	6-10	7-8	10-11
1	IL_1S72_048	1S72	0.6300	1	Kink-turn (H)	0	G	1312	A	1313	U	1314	G	1316	A	1317	A	1318	G	1319	*	U	1338	G	1339	G	1340	A	1341	C	1342		cWW		ntsS	tSH		tHS		tHS		cWW
2	IL_2ZJR_043	2ZJR	0.6679	1	Kink-turn (H)	X	C	1221	G	1222	G	1223	G	1225	A	1226	A	1227	G	1228	*	U	1247	G	1248	G	1249	A	1250	G	1251		cWW			tSH		tHS		tHS		cWW
3	IL_3UXR_044	3UXR	0.7458	1		A	C	1208	G	1209	A	1210	G	1212	A	1213	A	1214	G	1215	*	U	1234	G	1235	G	1236	A	1237	G	1238		cWW	ncSH		tSH		tHS		tHS		cWW
4	IL_4A1B_062	4A1B	0.7598	1		1	C	1414	C	1415	U	1416	G	1418	A	1419	A	1420	G	1421	*	U	1441	G	1442	G	1443	A	1444	G	1445		cWW		ntsS	tSH		ntHS		tHS		cWW
5	IL_2QBG_047	2QBG	0.7341	1		B	C	1208	U	1209	G	1210	G	1212	A	1213	A	1214	G	1215	*	U	1234	G	1235	G	1236	A	1237	G	1238		cWW			ntSH		ntHS		tHS		cWW
6	IL_3GX5_002	3GX5	0.5425	1		A	C	31	G	32	A	33	G	35	A	36	A	37	A	38	*	U	17	G	18	G	19	A	20	G	21		cWW		tsS	tSH		tHS		tHS		cWW
7	IL_3UXR_004	3UXR	0.5222	1		A	C	97	G	98	U	99	G	102	A	103	U	104	C	105	*	G	81	G	82	G	83	A	84	G	85		cWW		tsS	tSH				tHS		cWW
8	IL_1S72_004	1S72	0.5519	1	Kink-turn (H)	0	C	93	G	94	A	95	G	97	A	98	A	99	C	100	*	G	77	G	78	G	79	A	80	G	81		cWW		ntsS	tSH		ntHS	ntSs	tHS		cWW
9	IL_3RW6_002	3RW6	0.4290	4	Kink-turn with non-sequential stacking	H	C	43	A	44	A	45	G	47	A	48	C	49	G	50	*	U	11	A	12	C	16	A	17	G	18	ncsS	cWW		tsS	tSH	tHW				cwW	cWW
10	IL_3U5F_019	3U5F	0.4657	2		6	U	348	U	349	U	350	A	352	A	353	C	354	G	355	*	U	311	A	312	C	314	A	315	A	316	ncsS	cWW		tsS	ntSH	tHW				cwW	cWW
11	IL_2AW7_014	2AW7	0.3574	2		A	C	277	G	278	A	279	G	281	A	282	U	283	C	284	*	G	242	A	243	U	245	A	246	G	247	ncsS	cWW	ncSH		tSH	tHW				cWw	cWW
12	IL_3U5H_064	3U5H	0.0000	1		5	U	1388	G	1389	A	1390	G	1392	A	1393	A	1394	G	1395	*	U	1415	C	1416	G	1417	A	1418	A	1419		cWW		tsS	tSH		tHS		tHS		cWW
13	IL_2ZJR_004	2ZJR	0.2195	1	Kink-turn (H)	X	C	96	U	97	U	98	G	100	A	101	C	102	U	103	*	A	80	C	81	G	82	A	83	G	84		cWW		tsS	ntSH			ntSs	ncBW		cWW
14	IL_1T0K_001	1T0K	0.3166	1	Kink-turn	D+C	C	54	A	55	G	56	G	58	A	59	U	60	G	61	*	C	9	G	10	G	11	A	12	G	13		cWW		tsS	ntSH				ntHS		cWW
15	IL_3U5F_051	3U5F	0.3325	1		6	C	910	U	911	U	912	G	914	A	915	U	916	U	917	*	G	895	U	896	C	897	A	898	G	899	ncsS	cWW		ntsS	tSH			tSs			ncWW
16	IL_3NPB_003	3NPB	0.3321	1		A	C	31	G	32	A	33	G	35	A	36	A	37	G	38	*	C	17	A	18	G	19	A	20	G	21		cWW		tsS							cWW	ncSH
17	IL_1S72_032	1S72	0.3421	2	Kink-turn (H)	0	C	1026	G	1027	U	1028	G	1031	A	1032	C	1033	G	1034	*	C	936	C	937	G	938	A	939	G	940		ncWW		ntsS	tSH				cBW		cWW
18	IL_2XZM_017	2XZM	0.3867	2		A	C	339	A	340	G	341	C	343	A	344	C	345	G	346	*	U	302	A	303	C	305	A	306	G	307		cWW		ntsS		ncBW				cwW	ncWW
19	IL_3RW6_006	3RW6	0.4351	4		F	C	43	A	44	A	45	G	47	A	48	C	49	G	50	*	U	11	A	12	C	16	A	17	G	18		cWW		ntsS	tSH	tHW				cwW	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
CAAUGACG*UAAGACAG	2
GAUGGAAG*UGGAC	1
CGGAGAAG*UGGAG	1
CGAUGAAG*UGGAG	1
CCUAGAAG*UGGAG	1
CUGCGAAG*UGGAG	1
CGACGAAA*UGGAG	1
CGUGGAUC*GGGAG	1
CGAAGAAC*GGGAG	1
UUUCAACG*UAUCAA	1
CGACGAUC*GAUUAG	1
UGACGAAG*UCGAA	1
CUUUGACU*ACGAG	1
CAGAGAUG*CGGAG	1
CUUGGAUU*GUCAG	1
CGACGAAG*CAGAG	1
CGUUUGACG*CCGAG	1
CAGUCACG*UAUCAG	1

Non-Watson-Crick part of the motif

Sequence	Counts
AAUGAC*AAGACA	2
AUGGAA*GGA	1
GGAGAA*GGA	1
GAUGAA*GGA	1
CUAGAA*GGA	1
UGCGAA*GGA	1
GACGAA*GGA	1
GUGGAU*GGA	1
GAAGAA*GGA	1
UUCAAC*AUCA	1
GACGAU*AUUA	1
GACGAA*CGA	1
UUUGAC*CGA	1
AGAGAU*GGA	1
UUGGAU*UCA	1
GACGAA*AGA	1
GUUUGAC*CGA	1
AGUCAC*AUCA	1

Release history

Release	0.6
Date	2012-04-02
Status	> 2 parents

Parent motifs

Parent motif	Common motif instances	Only in IL_65553.1	Only in the parent motif
IL_34305.1 Compare	IL_2QBG_047, IL_2ZJR_043	IL_1S72_032, IL_3U5H_064, IL_3UXR_004, IL_1T0K_001, IL_3U5F_019, IL_2ZJR_004, IL_3UXR_044, IL_1S72_048, IL_4A1B_062, IL_3GX5_002, IL_2AW7_014, IL_3NPB_003, IL_1S72_004, IL_3RW6_006, IL_2XZM_017, IL_3RW6_002, IL_3U5F_051
IL_01955.1 Compare	IL_1S72_032, IL_2ZJR_004	IL_3U5H_064, IL_3UXR_004, IL_2QBG_047, IL_2ZJR_043, IL_3U5F_019, IL_3UXR_044, IL_1S72_048, IL_4A1B_062, IL_3GX5_002, IL_2AW7_014, IL_1T0K_001, IL_3NPB_003, IL_1S72_004, IL_3RW6_006, IL_2XZM_017, IL_3RW6_002, IL_3U5F_051
IL_89586.1 Compare	IL_1T0K_001, IL_1S72_048	IL_1S72_032, IL_3U5H_064, IL_3UXR_004, IL_2QBG_047, IL_2ZJR_043, IL_3U5F_019, IL_2ZJR_004, IL_3UXR_044, IL_1S72_004, IL_4A1B_062, IL_3GX5_002, IL_2AW7_014, IL_3NPB_003, IL_3RW6_006, IL_2XZM_017, IL_3RW6_002, IL_3U5F_051	IL_2GIS_002
IL_51412.1 Compare	IL_1S72_004	IL_1S72_032, IL_3U5H_064, IL_3UXR_004, IL_2QBG_047, IL_2ZJR_043, IL_3U5F_019, IL_2ZJR_004, IL_3UXR_044, IL_1S72_048, IL_4A1B_062, IL_3GX5_002, IL_2AW7_014, IL_1T0K_001, IL_3NPB_003, IL_3RW6_006, IL_2XZM_017, IL_3RW6_002, IL_3U5F_051	IL_3PYO_004
IL_77562.1 Compare	IL_2AW7_014	IL_1S72_032, IL_3U5H_064, IL_3UXR_004, IL_2QBG_047, IL_2ZJR_043, IL_3U5F_019, IL_2ZJR_004, IL_3UXR_044, IL_1S72_048, IL_4A1B_062, IL_3GX5_002, IL_1T0K_001, IL_3NPB_003, IL_1S72_004, IL_3RW6_006, IL_2XZM_017, IL_3RW6_002, IL_3U5F_051
IL_23044.1 Compare	IL_2XZM_017	IL_1S72_032, IL_3U5H_064, IL_3UXR_004, IL_2QBG_047, IL_2ZJR_043, IL_3U5F_019, IL_2ZJR_004, IL_3UXR_044, IL_1S72_048, IL_4A1B_062, IL_3GX5_002, IL_2AW7_014, IL_1T0K_001, IL_3NPB_003, IL_1S72_004, IL_3RW6_006, IL_3RW6_002, IL_3U5F_051
IL_56427.1 Compare	IL_3NPB_003	IL_1S72_032, IL_3U5H_064, IL_3UXR_004, IL_2QBG_047, IL_2ZJR_043, IL_3U5F_019, IL_2ZJR_004, IL_3UXR_044, IL_1S72_048, IL_4A1B_062, IL_3GX5_002, IL_2AW7_014, IL_1T0K_001, IL_3RW6_006, IL_1S72_004, IL_2XZM_017, IL_3RW6_002, IL_3U5F_051

Children motifs

Child motif	Common motif instances	Only in IL_65553.1	Only in the child motif
IL_65553.2 Compare	IL_1S72_032, IL_1T0K_001, IL_2QBG_047, IL_2ZJR_043, IL_3U5F_019, IL_2ZJR_004, IL_1S72_048, IL_4A1B_062, IL_3GX5_002, IL_3U5H_064, IL_2AW7_014, IL_3NPB_003, IL_1S72_004, IL_2XZM_017, IL_3RW6_002, IL_3U5F_051	IL_3UXR_004, IL_3RW6_006, IL_3UXR_044	IL_4AOB_002, IL_3V7E_006, IL_3V2F_044, IL_3U4M_004, IL_3V2F_004

Annotations: (12)
Kink-turn (H) (5)
Kink-turn (1)
Kink-turn with non-sequential stacking (1)
Basepair signature: 12_cWW-tSS--tSH-tHW,tHS-tHS,cWW-cWW
Heat map statistics: Min 0.10 | Avg 0.49 | Max 0.87

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Coloring options: Nucleotide numbers

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