Motif J3_01004.4 Version J3_01004.4 of this group appears in releases 4.14 to 4.14

Download

Csv

Json

Pairwise interactions
Sequence variants
History

#S	Loop id	PDB	Disc	#Non-core	Chain(s)	Standardized name for chain		1		2	break		3		4		5		6		7	break		8		9		10		11		12	1-12	2-3	3-4	6-9	7-8
1	J3_4WF9_013	4WF9	0.2017	2	X	LSU rRNA	A	56	C	57	*	G	70	A	71	A	73	G	75	C	76	*	G	109	A	110	U	111	U	112	U	113	cWW	cWW	cSH	cWW	cWW
2	J3_7A0S_002	7A0S	0.1939	2	X	LSU rRNA	A	55	C	56	*	G	69	A	70	A	72	G	74	C	75	*	G	108	A	109	U	110	G	111	U	112	cWW	cWW		ncWW	cWW
3	J3_9DFE_004	9DFE	0.1848	2	1A	LSU rRNA	A	56	C	57	*	G	70	A	71	A	73	G	75	C	76	*	G	110	A	111	U	112	G	113	U	114	cWW	cWW	ncSs	cWW	cWW
4	J3_4V9F_014	4V9F	0.1389	2	0	LSU rRNA	A	52	C	53	*	G	66	A	67	A	69	G	71	C	72	*	G	105	A	106	U	107	U	108	U	109	cWW	cWW	ncSs	cWW	cWW
5	J3_9E6Q_004	9E6Q	0.1409	2	1	LSU rRNA	G	48	C	49	*	G	62	A	63	A	65	G	67	C	68	*	G	101	A	102	U	103	C	104	C	105	cWW	cWW		cWW	cWW
6	J3_8B0X_015	8B0X	0.1280	2	a	LSU rRNA	A	56	C	57	*	G	70	A	71	A	73	G	75	C	76	*	G	110	A	111	U	112	U	113	U	114	cWW	cWW	ncSs	cWW	cWW
7	J3_9AXU_027	9AXU	0.0441	2	4	5.8S rRNA	A	52	C	53	*	G	66	A	67	A	69	G	71	U	72	*	A	104	A	105	U	106	C	107	U	108	cWW	cWW	ncSs	cWW	cWW
8	J3_8OI5_026	8OI5	0.0518	2	4	5.8S rRNA	A	44	C	45	*	G	58	A	59	A	61	G	63	U	64	*	A	96	A	97	U	98	C	99	U	100	cWW	cWW	ncSs	cWW	cWW
9	J3_9SUM_025	9SUM	0.0394	2	C	5.8S rRNA	A	44	C	45	*	G	58	A	59	A	61	G	63	U	64	*	A	92	A	93	U	94	C	95	U	96	cWW	cWW	ncSs	cWW	cWW
10	J3_9PN5_026	9PN5	0.0000	2	A4	5.8S rRNA	A	44	C	45	*	G	58	A	59	A	61	G	63	U	64	*	A	96	A	97	U	98	C	99	U	100	cWW	cWW	ncSs	cWW	cWW
11	J3_9H3G_004	9H3G	0.0776	2	3	5.8S rRNA	A	48	C	49	*	G	62	A	63	A	65	U	67	U	68	*	A	100	G	101	U	102	C	103	U	104	cWW	cWW	ncSs		cWW
12	J3_8GLP_039	8GLP	0.1547	2	L8	5.8S rRNA	A	44	C	45	*	G	58	A	59	A	61	U	63	U	64	*	A	95	C	96	A	97	C	98	U	99	cWW	cWW			cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
ACGAUACGUAAUCU	4
ACGAUAAGCGAUUU	2
ACGAUAUGCGAUUU	1
ACGAAAAGCGAUGU	1
ACGAUAAGCGAUGU	1
GCGAUAAGCGAUCC	1
ACGAUACUUAGUCU	1
ACGAGAAUUACACU	1

Non-Watson-Crick part of the motif

Sequence	Counts
AUACGAUC	4
AUAAGAUU	2
AUAUGAUU	1
AAAAGAUG	1
AUAAGAUG	1
AUAAGAUC	1
AUACUGUC	1
AGAAUCAC	1

Release history

Release	4.14
Date	2026-09-09
Status	Updated, 1 parent

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.

Annotations: (12)
Basepair signature: cWW-cWW-F-F-F-cWW-F-cWW
Heat map statistics: Min 0.04 | Avg 0.14 | Max 0.25

Help

Coloring options: Nucleotide numbers

Copyright 2026 BGSU RNA group. Database contents are licensed under Creative Commons Attribution 4.0 International (CC BY 4.0). Page generated in 0.3334 s