OTX1.H12RSNP.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	OTX1.H12RSNP.1.S.B
Gene (human)	OTX1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Otx1
Gene synonyms (mouse)	Otx-1
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	16
Consensus	nhWWWdMGGATTAdnn
GC content	34.93%
Information content (bits; total / per base)	15.089 / 0.943
Data sources	HT-SELEX
Aligned words	2359

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 10 experiments	median	0.926	0.88	0.9	0.85	0.83	0.797
Overall, 10 experiments	best	0.991	0.988	0.974	0.962	0.94	0.919
Methyl HT-SELEX, 3 experiments	median	0.923	0.875	0.896	0.846	0.844	0.797
Methyl HT-SELEX, 3 experiments	best	0.988	0.982	0.974	0.962	0.924	0.909
Non-Methyl HT-SELEX, 7 experiments	median	0.929	0.885	0.903	0.855	0.817	0.798
Non-Methyl HT-SELEX, 7 experiments	best	0.991	0.988	0.97	0.956	0.94	0.919

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.988	0.762	0.952	0.536
batch 2	0.821	0.677	0.872	0.661

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	Paired-related HD {3.1.3} (TFClass)
TF subfamily	OTX {3.1.3.17} (TFClass)
TFClass ID	TFClass: 3.1.3.17.1
HGNC	HGNC:8521
MGI	MGI:97450
EntrezGene (human)	GeneID:5013 (SSTAR profile)
EntrezGene (mouse)	GeneID:18423 (SSTAR profile)
UniProt ID (human)	OTX1_HUMAN
UniProt ID (mouse)	OTX1_MOUSE
UniProt AC (human)	P32242 (TFClass)
UniProt AC (mouse)	P80205 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	7
Methyl-HT-SELEX	3

PCM	OTX1.H12RSNP.1.S.B.pcm
PWM	OTX1.H12RSNP.1.S.B.pwm
PFM	OTX1.H12RSNP.1.S.B.pfm
Alignment	OTX1.H12RSNP.1.S.B.words.tsv
Threshold to P-value map	OTX1.H12RSNP.1.S.B.thr
Motif in other formats
JASPAR format	OTX1.H12RSNP.1.S.B_jaspar_format.txt
MEME format	OTX1.H12RSNP.1.S.B_meme_format.meme
Transfac format	OTX1.H12RSNP.1.S.B_transfac_format.txt
Homer format	OTX1.H12RSNP.1.S.B_homer_format_0.001.txt OTX1.H12RSNP.1.S.B_homer_format_0.0005.txt OTX1.H12RSNP.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	566.0	429.0	713.0	651.0
02	672.5	380.5	361.5	944.5
03	388.0	85.0	114.0	1772.0
04	1808.0	137.0	104.0	310.0
05	1833.0	138.0	106.0	282.0
06	314.0	189.0	500.0	1356.0
07	277.0	1806.0	195.0	81.0
08	76.0	104.0	2147.0	32.0
09	9.0	8.0	2332.0	10.0
10	2269.0	80.0	8.0	2.0
11	0.0	3.0	0.0	2356.0
12	16.0	0.0	0.0	2343.0
13	2311.0	2.0	9.0	37.0
14	1064.0	330.0	457.0	508.0
15	539.25	781.25	526.25	512.25
16	619.25	623.25	516.25	600.25

PFM

	A	C	G	T
01	0.24	0.182	0.302	0.276
02	0.285	0.161	0.153	0.4
03	0.164	0.036	0.048	0.751
04	0.766	0.058	0.044	0.131
05	0.777	0.058	0.045	0.12
06	0.133	0.08	0.212	0.575
07	0.117	0.766	0.083	0.034
08	0.032	0.044	0.91	0.014
09	0.004	0.003	0.989	0.004
10	0.962	0.034	0.003	0.001
11	0.0	0.001	0.0	0.999
12	0.007	0.0	0.0	0.993
13	0.98	0.001	0.004	0.016
14	0.451	0.14	0.194	0.215
15	0.229	0.331	0.223	0.217
16	0.263	0.264	0.219	0.254

PWM

	A	C	G	T
01	-0.041	-0.317	0.189	0.099
02	0.131	-0.436	-0.487	0.47
03	-0.417	-1.918	-1.63	1.098
04	1.118	-1.449	-1.72	-0.64
05	1.132	-1.442	-1.701	-0.734
06	-0.627	-1.131	-0.165	0.831
07	-0.752	1.117	-1.1	-1.965
08	-2.027	-1.72	1.29	-2.858
09	-3.99	-4.086	1.372	-3.903
10	1.345	-1.977	-4.086	-5.011
11	-5.72	-4.785	-5.72	1.383
12	-3.496	-5.72	-5.72	1.377
13	1.363	-5.011	-3.99	-2.721
14	0.589	-0.578	-0.254	-0.149
15	-0.089	0.28	-0.114	-0.14
16	0.049	0.055	-0.133	0.018

Standard thresholds

P-value	Threshold
0.001	2.45931
0.0005	3.78476
0.0001	6.50651