Motif IL_30621.4 Version IL_30621.4 of this group appears in releases 3.86 to 3.87

Download

Csv

Json

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	2-6	2-7	3-6	3-7	4-5
1	IL_4V88_431	4V88	0.4208	1	Tandem non-canonical cWW pairs	A6	SSU rRNA	C	874	G	875	G	877	G	878	*	C	950	A	951	A	952	G	953	cWW		cWW	cWW		cWW
2	IL_8C3A_438	8C3A	0.4050	1	Tandem non-canonical cWW pairs	CM	SSU rRNA	C	859	G	860	G	862	G	863	*	C	935	A	936	A	937	G	938	cWW		cWW	cWW		cWW
3	IL_6XJQ_002	6XJQ	0.4854	1		A	Self-alkylating ribozyme (58-MER)	C	48	G	49	A	50	U	51	*	A	10	G	11	A	13	G	14	cWW		cWS	cWW		cWW
4	IL_8C3A_436	8C3A	0.5191	1		CM	SSU rRNA	G	852	G	853	A	854	C	855	*	G	942	U	943	U	945	U	946	ncWW		ncWWa			cWW
5	IL_4V88_429	4V88	0.5172	1	Tandem non-canonical cWW pairs	A6	SSU rRNA	G	867	G	868	A	869	C	870	*	G	957	U	958	U	960	U	961	cWW		ncWW			cWW
6	IL_6JDV_002	6JDV	0.3876	0	Tandem non-canonical cWW pairs	B	CRISPR RNA direct repeat element	A	63	C	64	C	65	G	66	*	C	35	C	36	U	37	U	38	cWW		cWW			cWW
7	IL_3NDB_001	3NDB	0.4290	0	Self complementary	M	SRP RNA	C	253	G	254	G	255	G	256	*	C	125	U	126	C	127	G	128	cWW		ncWS	cWW		ncWW
8	IL_1D4R_001	1D4R	0.3963	0	Tandem non-canonical cWW pairs	A+B	29-MER OF MODIFIED SRP RNA HELIX 6	G	4	A	5	C	6	C	7	*	G	22	A	23	C	24	C	25	cWW		cWW	cWWa		cWW
9	IL_4WF9_109	4WF9	0.3587	0	Tandem non-canonical cWW pairs	Y	5S rRNA	C	110	A	111	G	112	G	113	*	C	2	U	3	G	4	G	5	cWW		ncHW	ncWWa		cWW
10	IL_1JID_002	1JID	0.3508	0	Tandem non-canonical cWW pairs	B	HELIX 6 OF HUMAN SRP RNA	G	138	A	139	C	140	C	141	*	G	156	A	157	C	158	C	159	cWW		cWW	cWW		cWW
11	IL_1D4R_003	1D4R	0.3602	0	Tandem non-canonical cWW pairs	A+B	29-MER OF MODIFIED SRP RNA HELIX 6	G	22	A	23	C	24	C	25	*	G	4	A	5	C	6	C	7	cWW		cWW	cWW		cWW
12	IL_1MFQ_004	1MFQ	0.3704	0	Tandem non-canonical cWW pairs	A	SRP RNA	G	156	A	157	C	158	C	159	*	G	138	A	139	C	140	C	141	cWW		ncWW	ncWW		cWW
13	IL_3WBM_002	3WBM	0.3995	0	Tandem non-canonical cWW pairs	Y+X	RNA (25-MER)	G	14	A	15	C	16	U	17	*	A	10	C	11	C	12	C	13	cWW		ncWW	ncBW		cWW
14	IL_3WBM_003	3WBM	0.4223	0	Tandem non-canonical cWW pairs	X+Y	RNA (25-MER)	G	14	A	15	C	16	U	17	*	A	10	C	11	C	12	C	13	cWW		cWW	ncBW		cWW
15	IL_7VYX_002	7VYX	0.4674	0		C	sgRNA	C	13	U	14	U	15	C	16	*	G	50	G	51	U	52	G	53	ncWW		ncWw	ncWWa		cWW
16	IL_1L9A_002	1L9A	0.5004	0	Tandem non-canonical cWW pairs	B	signal recognition particle RNA S domain	G	120	U	121	U	122	C	123	*	G	227	A	228	U	229	C	230	cWW		ncWw	ncWW		cWW
17	IL_4EYA_008	4EYA	0.4453	0	Tandem non-canonical cWW pairs	k+l	RNA (12-mer)	C	6	U	7	U	8	G	9	*	C	6	U	7	U	8	G	9	cWW		ncWw	ncWw		cWW
18	IL_4EYA_010	4EYA	0.4092	0	Tandem non-canonical cWW pairs	n+m	RNA (12-mer)	C	6	U	7	U	8	G	9	*	C	6	U	7	U	8	G	9	ncWW		ncWw	ncWw		cWW
19	IL_361D_001	361D	0.4340	0	Tandem non-canonical cWW pairs	B	RNA (20-mer)	C	93	C	94	U	95	G	96	*	U	80	G	81	G	82	G	83	cWW			ncWWa		cWW
20	IL_8C3A_109	8C3A	0.3082	0	Tandem non-canonical cWW pairs	1	LSU rRNA	U	2707	A	2708	C	2709	A	2710	*	U	2690	U	2691	G	2692	A	2693	cWW		cWW			cWW
21	IL_5TBW_100	5TBW	0.2895	0	Tandem non-canonical cWW pairs	1	LSU rRNA	U	2735	A	2736	C	2737	A	2738	*	U	2718	U	2719	G	2720	A	2721	cWW		cWW			cWW
22	IL_5J7L_283	5J7L	0.2540	0	Tandem non-canonical cWW pairs	DA	LSU rRNA	G	1038	A	1039	A	1040	G	1041	*	C	1114	G	1115	G	1116	C	1117	cWW		cWW	cWW		cWW
23	IL_8C3A_444	8C3A	0.1054	0	Tandem non-canonical cWW pairs	CM	SSU rRNA	G	1059	C	1060	A	1061	C	1062	*	G	1026	G	1027	A	1028	U	1029	cWW		ncWWa	cWW		cWW
24	IL_4V88_438	4V88	0.0000	0	Tandem non-canonical cWW pairs	A6	SSU rRNA	G	1074	C	1075	A	1076	C	1077	*	G	1041	G	1042	A	1043	U	1044	cWW		ncBW	cWW		cWW
25	IL_6DTD_001	6DTD	0.4073	0	Tandem non-canonical cWW pairs	C	RNA (37-MER)	A	31	A	32	A	33	C	34	*	G	5	C	6	A	7	U	8	cWW		cWw	ncWB		cWW
26	IL_5LQO_002	5LQO	0.3023	0	Tandem non-canonical cWW pairs	A+B	RNA (10-mer)	G	4	G	5	A	6	C	7	*	G	4	G	5	A	6	C	7	cWW		cWW	cWW		cWW
27	IL_8C3A_439	8C3A	0.4586	0	Tandem non-canonical cWW pairs	CM	SSU rRNA	A	909	G	910	A	911	C	912	*	G	870	U	871	A	872	U	873	cWW		cWW			cWW
28	IL_4V88_432	4V88	0.4615	0	Tandem non-canonical cWW pairs	A6	SSU rRNA	A	924	G	925	A	926	C	927	*	G	885	U	886	A	887	U	888	cWW		cWW			cWW
29	IL_4V88_430	4V88	0.3832	0	Tandem non-canonical cWW pairs	A6	SSU rRNA	G	953	G	954	A	955	C	956	*	G	871	G	872	U	873	C	874	cWW			cWW		cWW
30	IL_8C3A_437	8C3A	0.3654	0	Tandem non-canonical cWW pairs	CM	SSU rRNA	G	938	G	939	A	940	C	941	*	G	856	G	857	U	858	C	859	cWW			cWW		cWW
31	IL_3CUL_002	3CUL	0.4010	0	Tandem non-canonical cWW pairs	C	RNA (92-MER)	G	56	U	57	G	58	G	59	*	C	87	A	88	G	89	C	90	cWW		ncWWa	ncWW		cWW
32	IL_1L9A_005	1L9A	0.4403	0	Tandem non-canonical cWW pairs	B	signal recognition particle RNA S domain	G	138	A	139	C	140	C	141	*	G	156	A	157	C	158	C	159	cWW		ncWW	ncWWa		cWW
33	IL_4K27_001	4K27	0.4515	0	Tandem non-canonical cWW pairs	U	Myotonic Dystrophy Type 2 RNA	C	4	C	5	U	6	G	7	*	C	49	C	50	U	51	G	52	cWW		cWW	cWW		cWW
34	IL_8C3A_018	8C3A	0.5970	0	Tandem non-canonical cWW pairs	1	LSU rRNA	A	445	U	446	U	447	U	448	*	G	481	U	482	U	483	U	484	cWW				ncWS	cWW
35	IL_8X5V_001	8X5V	0.6426	0	Tandem non-canonical cWW pairs	B	RNA (110-mer)	U	28	U	29	C	30	C	31	*	G	40	U	41	U	42	G	43	cWW		cwW	cWW		cWW
36	IL_4K27_002	4K27	0.6354	0	Tandem non-canonical cWW pairs	U	Myotonic Dystrophy Type 2 RNA	C	45	C	46	U	47	G	48	*	C	8	C	9	U	10	G	11	cWW		cWW	cWW		cWW
37	IL_4K27_003	4K27	0.6473	0	Tandem non-canonical cWW pairs	U	Myotonic Dystrophy Type 2 RNA	C	41	C	42	U	43	G	44	*	C	12	C	13	U	14	G	15	cWW		cWW	cWW		cWW
38	IL_8C3A_135	8C3A	0.5639	0	Tandem non-canonical cWW pairs	1	LSU rRNA	C	3276	U	3277	U	3278	A	3279	*	U	3265	U	3266	U	3267	G	3268	cWW		cWw	cWw		cWW
39	IL_5EW4_002	5EW4	0.5019	0	Tandem non-canonical cWW pairs	B+A	RNA (22-mer)	C	8	C	9	C	10	G	11	*	C	14	C	15	C	16	G	17	cWW		ncBW	ncBW		cWW
40	IL_402D_001	402D	0.4919	0	Tandem non-canonical cWW pairs	A+B	RNA (8-mer)	C	103	C	104	A	105	G	106	*	C	111	C	112	A	113	G	114	cWW		cWW	cWW		cWW
41	IL_5C5W_003	5C5W	0.5828	0	Tandem non-canonical cWW pairs	A	RNA (19-mer)	C	15	U	16	A	17	G	18	*	C	2\|\|\|\|5_556	C	3\|\|\|\|5_556	U	4\|\|\|\|5_556	G	5\|\|\|\|5_556	cWW		cwW	cWW		cWW
42	IL_5C5W_001	5C5W	0.5828	0	Tandem non-canonical cWW pairs	A	RNA (19-mer)	C	15\|\|\|\|5_556	U	16\|\|\|\|5_556	A	17\|\|\|\|5_556	G	18\|\|\|\|5_556	*	C	2	C	3	U	4	G	5	cWW		cwW	cWW		cWW
43	IL_5EW4_001	5EW4	0.7028	0	Tandem non-canonical cWW pairs	B+A	RNA (22-mer)	C	14	C	15	C	16	G	17	*	C	8	C	9	C	10	G	11	cWW		cWw	cBW		cWW
44	IL_205D_001	205D	0.7346	0	Tandem non-canonical cWW pairs	A+B	RNA (12-mer)	U	5	U	6	U	7	G	8	*	U	17	U	18	U	19	G	20	cWW		cwW	cWw		cWW
45	IL_2PN3_004	2PN3	0.6947	0	Tandem non-canonical cWW pairs	A+B	RNA (24-mer) + RNA (20-mer)	C	62	U	63	U	64	C	65	*	G	102	U	103	C	104	G	105	cWW		cWW	cWw		cWW
46	IL_3TZR_003	3TZR	0.6803	0	Tandem non-canonical cWW pairs	A+B	RNA (20-mer) + RNA (16-mer)	C	62	U	63	U	64	C	65	*	G	102	U	103	C	104	G	105	cWW		cWW	cWw		cWW
47	IL_7A0S_040	7A0S	0.6567	0	Tandem non-canonical cWW pairs	X	LSU rRNA	A	1175	U	1176	U	1177	C	1178	*	G	1196	U	1197	C	1198	U	1199	cWW		cWW	ncWw		cWW
48	IL_4EYA_003	4EYA	0.7308	0	Tandem non-canonical cWW pairs	f+e	RNA (12-mer)	C	6	U	7	U	8	G	9	*	C	6	U	7	U	8	G	9	cWW		cwW	cWw		cWW
49	IL_8C3A_479	8C3A	0.6508	0	Tandem non-canonical cWW pairs	CM	SSU rRNA	G	1710	C	1711	U	1712	G	1713	*	C	1662	U	1663	C	1664	C	1665	cWW		ncWw	cWw		cWW
50	IL_5TBW_128	5TBW	0.6667	0	Tandem non-canonical cWW pairs	1	LSU rRNA	C	3235	U	3236	U	3237	G	3238	*	C	3249	U	3250	U	3251	G	3252	cWW		cwW	cWw		cWW
51	IL_6MWN_005	6MWN	0.6908	0	Tandem non-canonical cWW pairs	B	IRES	A	643	U	644	U	645	G	646	*	C	661	U	662	U	663	U	664	cWW		cwW	cWw		cWW
52	IL_3R2D_002	3R2D	0.6455	0	Tandem non-canonical cWW pairs	S+R	RNA (12-mer)	C	6	U	7	U	8	G	9	*	C	6	U	7	U	8	G	9	cWW		cwW	cWw		cWW
53	IL_8ID2_001	8ID2	0.6506	0	Tandem non-canonical cWW pairs	C	RNA (24-mer)	A	5	C	6	U	7	G	8	*	C	17	U	18	U	19	U	20	cWW	ncWW	cWW	cWw		cWW
54	IL_8C3A_060	8C3A	0.6912	0	Tandem non-canonical cWW pairs	1	LSU rRNA	A	1339	U	1340	U	1341	G	1342	*	C	1354	U	1355	U	1356	U	1357	cWW		cwW	cWw		cWW
55	IL_4UYK_003	4UYK	0.6963	0	Tandem non-canonical cWW pairs	R	SRP RNA	G	81	U	82	U	83	C	84	*	G	117	U	118	U	119	C	120	cWW		cwW	cWw		cWW
56	IL_280D_001	280D	0.7373	0	Tandem non-canonical cWW pairs	B+A	RNA (12-mer)	C	17	U	18	U	19	G	20	*	C	5	U	6	U	7	G	8	cWW		cwW	cWw		cWW
57	IL_8C3A_134	8C3A	0.7538	0	Tandem non-canonical cWW pairs	1	LSU rRNA	C	3200	U	3201	U	3202	A	3203	*	U	3214	U	3215	U	3216	G	3217	cWW		cwW	cWw		cWW
58	IL_6JDV_001	6JDV	0.7378	0	Tandem non-canonical cWW pairs	B	CRISPR RNA direct repeat element	C	32	U	33	C	34	C	35	*	G	66	U	67	U	68	G	69	cWW		cwW	ncWS		cWW
59	IL_8HNT_001	8HNT	0.7360	0	Tandem non-canonical cWW pairs	B	sgRNA	C	32	U	33	C	34	C	35	*	G	54	U	55	U	56	G	57	cWW		cwW	ncWS		cWW
60	IL_8UIW_002	8UIW	0.7154	0		N	azaaromatic riboswitch aptamer (yjdF RNA)	G	112	U	113	C	114	G	115	*	C	100	U	101	U	102	C	103	cWW		cwW			cWW
61	IL_4V88_473	4V88	0.7080	0	Tandem non-canonical cWW pairs	A6	SSU rRNA	C	1675	U	1676	C	1677	A	1678	*	U	1723	U	1724	U	1725	G	1726	cWW		cwW			cWW
62	IL_5TBW_041	5TBW	0.6722	0	Tandem non-canonical cWW pairs	1	LSU rRNA	U	1041	U	1042	C	1043	U	1044	*	A	1006	U	1007	U	1008	A	1009	cWW		cwW			cWW
63	IL_5TBW_129	5TBW	0.6480	0	Tandem non-canonical cWW pairs	1	LSU rRNA	U	3300	U	3301	U	3302	G	3303	*	C	3311	U	3312	U	3313	A	3314	cWW		cwW	cWw		cWW
64	IL_8C3A_399	8C3A	0.6540	0	Tandem non-canonical cWW pairs	CM	SSU rRNA	U	300	U	301	U	302	C	303	*	G	109	U	110	U	111	A	112	cWW		cwW	cWw		cWW
65	IL_4V88_391	4V88	0.6511	0	Tandem non-canonical cWW pairs	A6	SSU rRNA	U	302	U	303	U	304	C	305	*	G	109	U	110	U	111	A	112	cWW		cwW	cWw		cWW
66	IL_4V88_461	4V88	0.6860	0	Tandem non-canonical cWW pairs	A6	SSU rRNA	C	1495	U	1496	U	1497	G	1498	*	C	1509	U	1510	U	1511	G	1512	cWW		cwW			cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
CUUG*CUUG	7
GACC*GACC	5
CCUG*CCUG	3
CGGGG*CAAG	2
GGAC*GUUUU	2
GACU*ACCC	2
UACA*UUGA	2
GCAC*GGAU	2
AGAC*GUAU	2
GGAC*GGUC	2
CUUA*UUUG	2
CCCG*CCCG	2
CUAG*CCUG	2
CUUC*GUCG	2
AUUG*CUUU	2
CUCC*GUUG	2
UUUC*GUUA	2
CGAU*AGAAG	1
ACCG*CCUU	1
CGGG*CUCG	1
CAGG*CUGG	1
CUUC*GGUG	1
GUUC*GAUC	1
CCUG*UGGG	1
GAAG*CGGC	1
AAAC*GCAU	1
GGAC*GGAC	1
GUGG*CAGC	1
AUUU*GUUU	1
UUCC*GUUG	1
CCAG*CCAG	1
UUUG*UUUG	1
AUUC*GUCU	1
GCUG*CUCC	1
ACUG*CUUU	1
GUUC*GUUC	1
GUCG*CUUC	1
CUCA*UUUG	1
UUCU*AUUA	1
UUUG*CUUA	1

Non-Watson-Crick part of the motif

Sequence	Counts
UU*UU	17
UC*UU	6
AC*AC	5
CU*CU	3
UU*UC	3
GGG*AA	2
GA*UUU	2
AC*CC	2
AC*UG	2
CA*GA	2
GA*UA	2
GA*GU	2
CC*CC	2
UA*CU	2
GA*GAA	1
CC*CU	1
GG*UC	1
AG*UG	1
UU*GU	1
UU*AU	1
CU*GG	1
AA*GG	1
AA*CA	1
GA*GA	1
UG*AG	1
CA*CA	1
CU*UC	1
CU*UU	1

Release history

Release	3.86	3.87
Date	2024-07-17	2024-08-14
Status	Updated, 1 parent	Exact match

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.

Annotations: Tandem non-canonical cWW pairs (61)
(4)
Self complementary (1)
Basepair signature: cWW-cWW-cWW-cWW
Heat map statistics: Min 0.00 | Avg 0.43 | Max 0.85

Help

loadScript https://rna.bgsu.edu/rna3dhub//js/jsmol/j2s//core/package.js

loadScript https://rna.bgsu.edu/rna3dhub//js/jsmol/j2s//core/corejmol.z.js

JSmol exec jmolApplet0 start applet null

Jmol JavaScript applet jmolApplet0__0947329867170996__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__0947329867170996__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://rna.bgsu.edu/rna3dhub/motif/view/IL_30621.4","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__0947329867170996__","codePath":"https://rna.bgsu.edu/rna3dhub//js/jsmol/j2s//","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"0947329867170996","bgcolor":"white" }

setting document base to "https://rna.bgsu.edu/rna3dhub/motif/view/IL_30621.4"

Jmol Version: 14.4.4_2016.04.25 2016-04-26 17:41

java.vendor: Java2Script (HTML5)

java.version: 2016-04-21 14:47:41 (JSmol/j2s)

os.name: Mozilla/5.0 AppleWebKit/537.36 (KHTML, like Gecko; compatible; ClaudeBot/1.0; +claudebot@anthropic.com)

Access: ALL

memory: 0.0/0.0

processors available: 1

useCommandThread: false

appletId:jmolApplet0 (signed)

loadScript https://rna.bgsu.edu/rna3dhub//js/jsmol/j2s//core/corescript.z.js

Jmol getValue emulate null

defaults = "Jmol"

Jmol getValue boxbgcolor null

Jmol getValue bgcolor white

backgroundColor = "white"

Jmol getValue ANIMFRAMECallback null

Jmol getValue APPLETREADYCallback Jmol._readyCallback

APPLETREADYCallback = "Jmol._readyCallback"

callback set for APPLETREADYCallback Jmol._readyCallback APPLETREADY

Jmol getValue ATOMMOVEDCallback null

Jmol getValue CLICKCallback null

Jmol getValue DRAGDROPCallback null

Jmol getValue ECHOCallback null

Jmol getValue ERRORCallback null

Jmol getValue EVALCallback null

Jmol getValue HOVERCallback null

Jmol getValue IMAGECallback null

Jmol getValue LOADSTRUCTCallback null

Jmol getValue MEASURECallback null

Jmol getValue MESSAGECallback null

Jmol getValue MINIMIZATIONCallback null

Jmol getValue SERVICECallback null

Jmol getValue PICKCallback null

Jmol getValue RESIZECallback null

Jmol getValue SCRIPTCallback null

Jmol getValue SYNCCallback null

Jmol getValue STRUCTUREMODIFIEDCallback null

Jmol getValue doTranslate null

language=en_US

Jmol getValue popupMenu null

Jmol getValue script null

Jmol getValue loadInline null

Jmol getValue load null

Jmol applet jmolApplet0__0947329867170996__ ready

script 1 started

loadScript https://rna.bgsu.edu/rna3dhub//js/jsmol/j2s//core/coretext.z.js

Script completed

Jmol script terminated

script 2 started

Script completed

Jmol script terminated

script 3 started

Script completed

Jmol script terminated

script 4 started

Script completed

Jmol script terminated

Coloring options: Nucleotide numbers

Motif IL_30621.4 Version IL_30621.4 of this group appears in releases 3.86 to 3.87 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_30621.4 Version IL_30621.4 of this group appears in releases 3.86 to 3.87

Download

Csv

Json