Motif IL_38960.1 Version IL_38960.1 of this group appears in releases 1.0 to 1.0

Download

Csv

Json

Pairwise interactions
Sequence variants
History

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name for chain		1		2		3		4		5	break		6		7		8		9		10	1-10	2-8	2-9	3-9	4-7	5-6
1	IL_2ZJR_094	2ZJR	0.1116	4	tSH-tHS-tHW (H)	X	LSU rRNA	U	2615	U	2616	G	2617	A	2618	G	2619	*	C	2754	A	2755	A	2756	A	2758	G	2762	cWW	tWH		tSH	ntHS	cWW
2	IL_3V2F_098	3V2F	0.0000	4		A	LSU rRNA	U	2636	U	2637	G	2638	A	2639	G	2640	*	C	2774	A	2775	A	2776	A	2778	G	2782	cWW	tWH		tSH	tHS	cWW
3	IL_1S72_089	1S72	0.2323	4		0	LSU rRNA	C	2672	U	2673	G	2674	A	2675	C	2676	*	G	2809	G	2810	A	2811	A	2813	G	2817	cWW	tWH		tSH	tHS	cWW
4	IL_2ZJR_048	2ZJR	0.6987	0		X	LSU rRNA	C	1364	U	1365	A	1366	A	1367	G	1368	*	C	1389	G	1390	A	1391	U	1392	G	1393	cWW	tWH			tHS	cWW
5	IL_3V2F_071	3V2F	0.8277	0		A	LSU rRNA	U	1851	C	1852	A	1853	A	1854	G	1855	*	C	1887	G	1888	A	1889	A	1890	G	1891	cWW		tSH		tHS	cWW
6	IL_2ZJR_070	2ZJR	0.9435	0	UAA/GAN with extra stack (H)	X	LSU rRNA	U	1843	C	1844	A	1845	A	1846	G	1847	*	U	1870	G	1871	A	1872	A	1873	G	1874	cWW		ntSH			ncWW

3D structures

Complete motif including flanking bases

Sequence	Counts
UUGAG*CAAGAUGAG	2
CUGAC*GGAAAAGAG	1
CUAAG*CGAUG	1
UCAAG*CGAAG	1
UCAAG*UGAAG	1

Non-Watson-Crick part of the motif

Sequence	Counts
UGA*AAGAUGA	2
CAA*GAA	2
UGA*GAAAAGA	1
UAA*GAU	1

Release history

Release	1.0
Date	2013-03-04
Status	New id, 2 parents

Parent motifs

Parent motif	Common motif instances	Only in IL_38960.1	Only in the parent motif
IL_24022.2 Compare	IL_3V2F_098, IL_1S72_089, IL_2ZJR_094	IL_2ZJR_070, IL_2ZJR_048, IL_3V2F_071	IL_3V2F_027, IL_2QBG_031, IL_1S72_034
IL_62661.2 Compare	IL_2ZJR_070, IL_2ZJR_048, IL_3V2F_071	IL_3V2F_098, IL_1S72_089, IL_2ZJR_094	IL_4A1B_008

Children motifs

Child motif	Common motif instances	Only in IL_38960.1	Only in the child motif
IL_39585.1 Compare	IL_3V2F_098, IL_1S72_089, IL_3V2F_071	IL_2ZJR_070, IL_2ZJR_048, IL_2ZJR_094	IL_4IOA_069, IL_4IOA_050, IL_4IOA_095

Annotations: (4)
UAA/GAN with extra stack (H) (1)
tSH-tHS-tHW (H) (1)
Basepair signature: cWW-tSH-tWH-tSH-tHS-cWW
Heat map statistics: Min 0.11 | Avg 0.55 | Max 0.97

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__847993146098192__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__847993146098192__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://rna.bgsu.edu/rna3dhub/motif/view/IL_38960.1","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__847993146098192__","codePath":"https://rna.bgsu.edu/rna3dhub//js/jsmol/j2s//","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"847993146098192","bgcolor":"white" }

setting document base to "https://rna.bgsu.edu/rna3dhub/motif/view/IL_38960.1"

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__847993146098192__ 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_38960.1 Version IL_38960.1 of this group appears in releases 1.0 to 1.0 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_38960.1 Version IL_38960.1 of this group appears in releases 1.0 to 1.0

Download

Csv

Json