HL_39895.9

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name		1		2		3		4		5	1-5	2-4
1	HL_3U5H_012	3U5H	0.6856	1		5	25S rRNA	C	543	C	544	C	546	G	547	G	548	cWW
2	HL_2NUE_001	2NUE	0.6279	1	GNRA related	C	46-MER	C	21	G	22	A	24	A	25	G	26	cWW	ncSW
3	HL_4A1B_014	4A1B	0.6048	1		1	26S RRNA	C	626	U	627	A	629	G	630	G	631	cWW	ncWW
4	HL_3U5F_005	3U5F	0.6612	1		6	18S rRNA	C	230	U	231	C	233	G	234	G	235	ncWW
5	HL_2AW7_023	2AW7	0.3851	1		A	16S ribosomal RNA	C	1028	U	1029	C	1031	G	1032	G	1033	cWW
6	HL_2AW7_005	2AW7	0.3311	1		A	16S ribosomal RNA	C	207	U	208	C	210	G	211	G	212	cWW	ntSW
7	HL_4CUX_011	4CUX	0.2666	1		2	18S RRNA	C	414	C	415	A	417	G	418	G	419	cWW	tSW
8	HL_3J7A_009	3J7A	0.1711	1	UNCG (H)	A	SSU rRNA	C	420	U	421	A	423	G	424	G	425	cWW	tSW
9	HL_1YKV_002	1YKV	0.1795	1		D	Diels-Alder ribozyme	C	220	U	221	C	223	G	224	G	225	ncWW	tSW
10	HL_1F7Y_002	1F7Y	0.2237	1		B	16S RIBOSOMAL RNA FRAGMENT	C	32	U	33	C	35	G	36	G	37	cWW	tSW
11	HL_4BPP_011	4BPP	0.2380	1		A	18S RRNA	C	405	U	406	C	408	G	409	G	410	cWW	ntSWa
12	HL_2QBG_040	2QBG	0.2072	1		B	23S rRNA	C	1533	U	1534	C	1536	G	1537	G	1538	cWW	tSW
13	HL_1FJG_009	1FJG	0.1660	1	UNCG (H)	A	SSU rRNA	C	342	U	343	C	345	G	346	G	347	cWW	tSW
14	HL_1FJG_031	1FJG	0.1679	1	UNCG (H)	A	SSU rRNA	C	1449	U	1450	C	1452	G	1453	G	1454	cWW	tSW
15	HL_1F7Y_001	1F7Y	0.1539	1		B	16S RIBOSOMAL RNA FRAGMENT	C	8	U	9	C	11	G	12	G	13	cWW	tSW
16	HL_1S72_044	1S72	0.1243	1	UNCG (H)	0	LSU rRNA	C	1769	U	1770	C	1772	G	1773	G	1774	cWW	tSW
17	HL_2AW7_009	2AW7	0.1384	1		A	16S ribosomal RNA	C	342	U	343	C	345	G	346	G	347	cWW	tSW
18	HL_4AY2_001	4AY2	0.1251	1	UNCG	C	5'-R-PPP(GPGPCPGPCPGPGPCPUPUPCPGPGPCP CPGPCPGPCP*C)-3'	C	8	U	9	C	11	G	12	G	13	cWW	tSW
19	HL_1UN6_003	1UN6	0.1242	1	UNCG	F	5S RIBOSOMAL RNA	C	15	U	16	C	18	G	19	G	64	cWW	tSW
20	HL_1FJG_011	1FJG	0.1350	1	UNCG (H)	A	SSU rRNA	C	419	U	420	C	422	G	423	G	424	cWW	tSW
21	HL_4JF2_003	4JF2	0.0973	1	UNCG	A	PreQ1-II Riboswitch	C	60	U	61	C	63	G	64	G	65	cWW	tSW
22	HL_2QBG_044	2QBG	0.0883	1		B	23S rRNA	C	1691	U	1692	C	1694	G	1695	G	1696	cWW	tSW
23	HL_1I6U_002	1I6U	0.0000	1		D	16S RRNA FRAGMENT	C	16	U	17	C	19	G	20	G	21	cWW	tSW
24	HL_4NVV_040	4NVV	0.0911	1		A	23S Ribosomal RNA	C	1738	U	1739	C	1741	G	1742	G	1743	cWW	tSW
25	HL_3U5F_011	3U5F	0.1327	1		6	18S rRNA	C	414	C	415	A	417	G	418	G	419	cWW	tSW
26	HL_1VX6_043	1VX6	0.1053	1		A	28S ribosomal RNA	C	2191	U	2192	C	2194	G	2195	G	2196	cWW	tSW
27	HL_4IOA_041	4IOA	0.1525	1	UNCG	X	LSU rRNA	C	1708	U	1709	C	1711	G	1712	G	1713	cWW	tSW
28	HL_4A1B_042	4A1B	0.1374	1		1	26S RRNA	C	1947	U	1948	C	1950	G	1951	G	1952	cWW	tSW
29	HL_3U5H_043	3U5H	0.1424	1		5	25S rRNA	C	1923	U	1924	C	1926	G	1927	G	1928	cWW	tSW
30	HL_4CUV_043	4CUV	0.1435	1		1	25S RRNA	C	1923	U	1924	C	1926	G	1927	G	1928	cWW	tSW
31	HL_2AW7_011	2AW7	0.1776	1		A	16S ribosomal RNA	C	419	U	420	C	422	G	423	G	424	cWW	tSW
32	HL_3UMY_001	3UMY	0.1529	1	UNCG (H)	B	LSU rRNA	C	2143	U	2144	C	2146	G	2147	G	2148	cWW	tSW
33	HL_2HW8_001	2HW8	0.0973	1	UNCG	B	36-MER	C	15	U	16	C	18	G	19	G	20	cWW	tSW
34	HL_2AW7_031	2AW7	0.1420	1		A	16S ribosomal RNA	C	1449	U	1450	C	1452	G	1453	G	1454	cWW	tSW
35	HL_1NBS_006	1NBS	0.1825	1	UNCG	B	RNase P class B	C	152	U	153	C	155	G	156	G	157	cWW	tSW
36	HL_1VWW_044	1VWW	0.2166	30		5	28S ribosomal RNA	C	2872	U	2873	C	2875	G	2876	G	2877	cWW	ntSW
37	HL_1VX2_010	1VX2	0.2196	1		2	18S ribosomal RNA	C	462	C	463	A	465	G	466	G	467	cWW	ntSW
38	HL_1VWW_053	1VWW	0.3311	4		5	28S ribosomal RNA	C	4102	C	4103	A	4105	G	4106	G	4107	cWW	ntSW
39	HL_4FAW_008	4FAW	0.3509	1		A	Group II catalytic intron D1-D4-3	G	338	U	339	C	341	G	342	C	343	ncWW	tSW
40	HL_1VW3_031	1VW3	0.3852	2		A	21S ribosomal RNA	G	1643	U	1644	A	1646	G	1647	C	1649	cWW	tSW
41	HL_3V7E_005	3V7E	0.4203	1	UNCG variation (H)	D	SAM-I riboswitch	C	265	U	266	C	268	G	269	G	270	cWW
42	HL_2QBG_006	2QBG	0.7219	1		B	23S rRNA	U	137	U	138	C	140	G	141	A	142	cWW	tSW
43	HL_4CUX_005	4CUX	0.6044	1		2	18S RRNA	C	230	U	231	C	233	G	234	G	235	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
CUUCGG	24
CUACGG	6
CCAAGG	3
CUAAGG	2
CCUCGG	1
CGCAAG	1
CUCCGG	1
CUGAAUGUCAAAGUGAAGAAAUUCAAUGAAGCGCG	1
GACAGAAAC	1
GUUCGC	1
GUUAGUC	1
UUUCGA	1

Non-Watson-Crick part of the motif

Sequence	Counts
UUCG	26
UACG	6
CAAG	3
UAAG	2
CUCG	1
GCAA	1
UCCG	1
UGAAUGUCAAAGUGAAGAAAUUCAAUGAAGCGC	1
ACAGAAA	1
UUAGU	1

Release history

Release	1.16
Date	2014-07-26
Status	Updated, 1 parent

Parent motifs

Parent motif	Common motif instances	Only in HL_39895.9	Only in the parent motif
HL_39895.8 Compare	HL_1UN6_003, HL_4A1B_014, HL_2HW8_001, HL_1FJG_009, HL_4JF2_003, HL_1F7Y_001, HL_1F7Y_002, HL_3V7E_005, HL_4CUX_011, HL_2NUE_001, HL_3U5H_012, HL_1FJG_011, HL_4CUV_043, HL_1NBS_006, HL_1FJG_031, HL_4NVV_040, HL_2AW7_009, HL_2AW7_005, HL_1YKV_002, HL_4IOA_041, HL_1I6U_002, HL_3U5F_011, HL_3UMY_001, HL_3U5H_043, HL_4A1B_042, HL_2AW7_023, HL_4BPP_011, HL_3U5F_005, HL_1S72_044, HL_4AY2_001, HL_2QBG_006, HL_4FAW_008, HL_4CUX_005, HL_1VW3_031, HL_2QBG_040, HL_2QBG_044, HL_2AW7_011, HL_2AW7_031	HL_1VX6_043, HL_1VX2_010, HL_1VWW_044, HL_1VWW_053, HL_3J7A_009

Children motifs

Child motif	Common motif instances	Only in HL_39895.9	Only in the child motif
HL_39895.10 Compare	HL_1UN6_003, HL_4A1B_014, HL_2HW8_001, HL_1FJG_009, HL_4JF2_003, HL_1F7Y_001, HL_1F7Y_002, HL_3V7E_005, HL_4CUX_011, HL_1VWW_053, HL_3U5F_011, HL_3U5H_012, HL_1FJG_011, HL_4CUV_043, HL_1NBS_006, HL_1FJG_031, HL_2AW7_009, HL_2AW7_005, HL_1YKV_002, HL_4IOA_041, HL_1I6U_002, HL_3J7A_009, HL_2NUE_001, HL_1VX6_043, HL_3UMY_001, HL_3U5H_043, HL_1VWW_044, HL_4A1B_042, HL_2AW7_023, HL_4BPP_011, HL_3U5F_005, HL_1S72_044, HL_4AY2_001, HL_2QBG_006, HL_4FAW_008, HL_4CUX_005, HL_1VW3_031, HL_2QBG_040, HL_1VX2_010, HL_2QBG_044, HL_2AW7_011, HL_2AW7_031	HL_4NVV_040	HL_4U7U_002, HL_4QCN_049, HL_4QCN_040

Motif HL_39895.9 Version HL_39895.9 of this group appears in releases 1.16 to 1.16 Download Csv Json

3D structures

Complete motif including flanking bases

Non-Watson-Crick part of the motif

Release history

Parent motifs

Children motifs

Motif HL_39895.9 Version HL_39895.9 of this group appears in releases 1.16 to 1.16

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Csv

Json