NR2E1.H12RSNP.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NR2E1.H12RSNP.1.S.B
Gene (human)	NR2E1 (GeneCards)
Gene synonyms (human)	TLX
Gene (mouse)	Nr2e1
Gene synonyms (mouse)	Tll, Tlx
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	17
Consensus	vMAGTCAWdAAGTCAhn
GC content	34.8%
Information content (bits; total / per base)	22.635 / 1.331
Data sources	HT-SELEX
Aligned words	311

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.774	0.767	0.642	0.65	0.571	0.588
Overall, 6 experiments	best	0.99	0.986	0.944	0.933	0.838	0.831
Methyl HT-SELEX, 1 experiments	median	0.99	0.986	0.944	0.933	0.838	0.831
Methyl HT-SELEX, 1 experiments	best	0.99	0.986	0.944	0.933	0.838	0.831
Non-Methyl HT-SELEX, 5 experiments	median	0.735	0.727	0.621	0.627	0.561	0.575
Non-Methyl HT-SELEX, 5 experiments	best	0.982	0.975	0.932	0.916	0.836	0.823

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.9	0.266	0.832	0.475
batch 2	0.671	0.175	0.712	0.494

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	Nuclear receptors with C4 zinc fingers {2.1} (TFClass)
TF family	RXR-related receptors {2.1.3} (TFClass)
TF subfamily	TLX (NR2E1) {2.1.3.3} (TFClass)
TFClass ID	TFClass: 2.1.3.3.1
HGNC	HGNC:7973
MGI	MGI:1100526
EntrezGene (human)	GeneID:7101 (SSTAR profile)
EntrezGene (mouse)	GeneID:21907 (SSTAR profile)
UniProt ID (human)	NR2E1_HUMAN
UniProt ID (mouse)	NR2E1_MOUSE
UniProt AC (human)	Q9Y466 (TFClass)
UniProt AC (mouse)	Q64104 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	5
Methyl-HT-SELEX	1

PCM	NR2E1.H12RSNP.1.S.B.pcm
PWM	NR2E1.H12RSNP.1.S.B.pwm
PFM	NR2E1.H12RSNP.1.S.B.pfm
Alignment	NR2E1.H12RSNP.1.S.B.words.tsv
Threshold to P-value map	NR2E1.H12RSNP.1.S.B.thr
Motif in other formats
JASPAR format	NR2E1.H12RSNP.1.S.B_jaspar_format.txt
MEME format	NR2E1.H12RSNP.1.S.B_meme_format.meme
Transfac format	NR2E1.H12RSNP.1.S.B_transfac_format.txt
Homer format	NR2E1.H12RSNP.1.S.B_homer_format_0.001.txt NR2E1.H12RSNP.1.S.B_homer_format_0.0005.txt NR2E1.H12RSNP.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	120.0	52.0	88.0	51.0
02	241.75	40.75	25.75	2.75
03	275.0	9.0	19.0	8.0
04	3.0	0.0	308.0	0.0
05	0.0	0.0	5.0	306.0
06	0.0	306.0	0.0	5.0
07	303.0	5.0	3.0	0.0
08	219.0	28.0	21.0	43.0
09	109.0	14.0	50.0	138.0
10	303.0	0.0	2.0	6.0
11	309.0	1.0	1.0	0.0
12	0.0	0.0	311.0	0.0
13	0.0	1.0	0.0	310.0
14	0.0	308.0	0.0	3.0
15	304.0	0.0	7.0	0.0
16	160.0	45.0	42.0	64.0
17	55.75	67.75	79.75	107.75

PFM

	A	C	G	T
01	0.386	0.167	0.283	0.164
02	0.777	0.131	0.083	0.009
03	0.884	0.029	0.061	0.026
04	0.01	0.0	0.99	0.0
05	0.0	0.0	0.016	0.984
06	0.0	0.984	0.0	0.016
07	0.974	0.016	0.01	0.0
08	0.704	0.09	0.068	0.138
09	0.35	0.045	0.161	0.444
10	0.974	0.0	0.006	0.019
11	0.994	0.003	0.003	0.0
12	0.0	0.0	1.0	0.0
13	0.0	0.003	0.0	0.997
14	0.0	0.99	0.0	0.01
15	0.977	0.0	0.023	0.0
16	0.514	0.145	0.135	0.206
17	0.179	0.218	0.256	0.346

PWM

	A	C	G	T
01	0.428	-0.393	0.122	-0.412
02	1.122	-0.63	-1.069	-2.94
03	1.25	-2.027	-1.355	-2.127
04	-2.882	-4.011	1.363	-4.011
05	-4.011	-4.011	-2.51	1.356
06	-4.011	1.356	-4.011	-2.51
07	1.347	-2.51	-2.882	-4.011
08	1.024	-0.99	-1.261	-0.578
09	0.333	-1.635	-0.431	0.566
10	1.347	-4.011	-3.138	-2.366
11	1.366	-3.482	-3.482	-4.011
12	-4.011	-4.011	1.373	-4.011
13	-4.011	-3.482	-4.011	1.369
14	-4.011	1.363	-4.011	-2.882
15	1.35	-4.011	-2.239	-4.011
16	0.712	-0.534	-0.601	-0.191
17	-0.325	-0.135	0.025	0.321

Standard thresholds

P-value	Threshold
0.001	-1.66529
0.0005	-0.05379
0.0001	3.35646