NR1H3.H12RSNP.0.P.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NR1H3.H12RSNP.0.P.D
Gene (human)	NR1H3 (GeneCards)
Gene synonyms (human)	LXRA
Gene (mouse)	Nr1h3
Gene synonyms (mouse)	Lxra
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	17
Consensus	vRGGKhAYhnnRGGKCA
GC content	51.92%
Information content (bits; total / per base)	12.74 / 0.749
Data sources	ChIP-Seq
Aligned words	999

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	pseudo-log-auROC, median	pseudo-log-auROC, best	Centrality, median	Centrality, best
Human	3 (20)	0.73	0.82	0.651	0.739	0.719	0.81	2.814	3.459	60.328	125.921
Mouse	8 (49)	0.761	0.877	0.693	0.835	0.727	0.87	2.716	4.254	79.796	184.31

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	Nuclear receptors with C4 zinc fingers {2.1} (TFClass)
TF family	Thyroid hormone receptor-related {2.1.2} (TFClass)
TF subfamily	LXR (NR1H) {2.1.2.7} (TFClass)
TFClass ID	TFClass: 2.1.2.7.1
HGNC	HGNC:7966
MGI	MGI:1352462
EntrezGene (human)	GeneID:10062 (SSTAR profile)
EntrezGene (mouse)	GeneID:22259 (SSTAR profile)
UniProt ID (human)	NR1H3_HUMAN
UniProt ID (mouse)	NR1H3_MOUSE
UniProt AC (human)	Q13133 (TFClass)
UniProt AC (mouse)	Q9Z0Y9 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	3 human, 8 mouse
HT-SELEX	0
Methyl-HT-SELEX	0

PCM	NR1H3.H12RSNP.0.P.D.pcm
PWM	NR1H3.H12RSNP.0.P.D.pwm
PFM	NR1H3.H12RSNP.0.P.D.pfm
Alignment	NR1H3.H12RSNP.0.P.D.words.tsv
Threshold to P-value map	NR1H3.H12RSNP.0.P.D.thr
Motif in other formats
JASPAR format	NR1H3.H12RSNP.0.P.D_jaspar_format.txt
MEME format	NR1H3.H12RSNP.0.P.D_meme_format.meme
Transfac format	NR1H3.H12RSNP.0.P.D_transfac_format.txt
Homer format	NR1H3.H12RSNP.0.P.D_homer_format_0.001.txt NR1H3.H12RSNP.0.P.D_homer_format_0.0005.txt NR1H3.H12RSNP.0.P.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	299.0	141.0	464.0	95.0
02	505.0	29.0	444.0	21.0
03	88.0	5.0	836.0	70.0
04	13.0	13.0	820.0	153.0
05	28.0	118.0	135.0	718.0
06	136.0	392.0	53.0	418.0
07	862.0	23.0	45.0	69.0
08	81.0	656.0	39.0	223.0
09	107.0	262.0	96.0	534.0
10	302.0	261.0	184.0	252.0
11	223.0	219.0	334.0	223.0
12	650.0	85.0	215.0	49.0
13	59.0	7.0	901.0	32.0
14	24.0	13.0	768.0	194.0
15	117.0	110.0	168.0	604.0
16	17.0	867.0	21.0	94.0
17	882.0	20.0	73.0	24.0

PFM

	A	C	G	T
01	0.299	0.141	0.464	0.095
02	0.506	0.029	0.444	0.021
03	0.088	0.005	0.837	0.07
04	0.013	0.013	0.821	0.153
05	0.028	0.118	0.135	0.719
06	0.136	0.392	0.053	0.418
07	0.863	0.023	0.045	0.069
08	0.081	0.657	0.039	0.223
09	0.107	0.262	0.096	0.535
10	0.302	0.261	0.184	0.252
11	0.223	0.219	0.334	0.223
12	0.651	0.085	0.215	0.049
13	0.059	0.007	0.902	0.032
14	0.024	0.013	0.769	0.194
15	0.117	0.11	0.168	0.605
16	0.017	0.868	0.021	0.094
17	0.883	0.02	0.073	0.024

PWM

	A	C	G	T
01	0.179	-0.566	0.616	-0.955
02	0.701	-2.102	0.572	-2.404
03	-1.031	-3.621	1.203	-1.254
04	-2.838	-2.838	1.184	-0.486
05	-2.135	-0.742	-0.609	1.052
06	-0.602	0.448	-1.525	0.512
07	1.234	-2.319	-1.683	-1.269
08	-1.112	0.961	-1.82	-0.112
09	-0.839	0.048	-0.945	0.756
10	0.189	0.044	-0.303	0.009
11	-0.112	-0.13	0.289	-0.112
12	0.952	-1.065	-0.149	-1.601
13	-1.421	-3.361	1.278	-2.009
14	-2.28	-2.838	1.119	-0.251
15	-0.751	-0.811	-0.393	0.879
16	-2.597	1.24	-2.404	-0.966
17	1.257	-2.449	-1.214	-2.28

Standard thresholds

P-value	Threshold
0.001	4.03506
0.0005	4.98696
0.0001	6.98411