PO4F1.H12RSNP.1.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PO4F1.H12RSNP.1.SM.D
Gene (human)	POU4F1 (GeneCards)
Gene synonyms (human)	BRN3A, RDC1
Gene (mouse)	Pou4f1
Gene synonyms (mouse)	Brn-3, Brn3, Brn3a
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	17
Consensus	hvRTWAATWATKMAbdn
GC content	25.57%
Information content (bits; total / per base)	16.222 / 0.954
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	7448

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.985	0.975	0.951	0.936	0.835	0.839
Overall, 4 experiments	best	0.995	0.992	0.99	0.985	0.977	0.968
Methyl HT-SELEX, 1 experiments	median	0.995	0.992	0.99	0.985	0.977	0.968
Methyl HT-SELEX, 1 experiments	best	0.995	0.992	0.99	0.985	0.977	0.968
Non-Methyl HT-SELEX, 3 experiments	median	0.975	0.958	0.944	0.935	0.751	0.786
Non-Methyl HT-SELEX, 3 experiments	best	0.994	0.991	0.957	0.938	0.919	0.891

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	POU {3.1.10} (TFClass)
TF subfamily	POU4 {3.1.10.4} (TFClass)
TFClass ID	TFClass: 3.1.10.4.1
HGNC	HGNC:9218
MGI	MGI:102525
EntrezGene (human)	GeneID:5457 (SSTAR profile)
EntrezGene (mouse)	GeneID:18996 (SSTAR profile)
UniProt ID (human)	PO4F1_HUMAN
UniProt ID (mouse)	PO4F1_MOUSE
UniProt AC (human)	Q01851 (TFClass)
UniProt AC (mouse)	P17208 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	PO4F1.H12RSNP.1.SM.D.pcm
PWM	PO4F1.H12RSNP.1.SM.D.pwm
PFM	PO4F1.H12RSNP.1.SM.D.pfm
Alignment	PO4F1.H12RSNP.1.SM.D.words.tsv
Threshold to P-value map	PO4F1.H12RSNP.1.SM.D.thr
Motif in other formats
JASPAR format	PO4F1.H12RSNP.1.SM.D_jaspar_format.txt
MEME format	PO4F1.H12RSNP.1.SM.D_meme_format.meme
Transfac format	PO4F1.H12RSNP.1.SM.D_transfac_format.txt
Homer format	PO4F1.H12RSNP.1.SM.D_homer_format_0.001.txt PO4F1.H12RSNP.1.SM.D_homer_format_0.0005.txt PO4F1.H12RSNP.1.SM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1484.25	1373.25	1342.25	3248.25
02	2167.0	3491.0	948.0	842.0
03	5319.0	743.0	850.0	536.0
04	58.0	59.0	68.0	7263.0
05	930.0	579.0	761.0	5178.0
06	6915.0	337.0	25.0	171.0
07	6393.0	54.0	29.0	972.0
08	109.0	37.0	86.0	7216.0
09	2402.0	164.0	86.0	4796.0
10	7407.0	12.0	11.0	18.0
11	127.0	75.0	80.0	7166.0
12	33.0	29.0	3828.0	3558.0
13	896.0	5816.0	265.0	471.0
14	6317.0	163.0	909.0	59.0
15	654.0	1556.0	1123.0	4115.0
16	1517.25	1184.25	3075.25	1671.25
17	2534.75	1724.75	1492.75	1695.75

PFM

	A	C	G	T
01	0.199	0.184	0.18	0.436
02	0.291	0.469	0.127	0.113
03	0.714	0.1	0.114	0.072
04	0.008	0.008	0.009	0.975
05	0.125	0.078	0.102	0.695
06	0.928	0.045	0.003	0.023
07	0.858	0.007	0.004	0.131
08	0.015	0.005	0.012	0.969
09	0.323	0.022	0.012	0.644
10	0.994	0.002	0.001	0.002
11	0.017	0.01	0.011	0.962
12	0.004	0.004	0.514	0.478
13	0.12	0.781	0.036	0.063
14	0.848	0.022	0.122	0.008
15	0.088	0.209	0.151	0.552
16	0.204	0.159	0.413	0.224
17	0.34	0.232	0.2	0.228

PWM

	A	C	G	T
01	-0.226	-0.304	-0.327	0.556
02	0.152	0.628	-0.674	-0.792
03	1.049	-0.917	-0.783	-1.242
04	-3.432	-3.416	-3.279	1.36
05	-0.693	-1.165	-0.893	1.022
06	1.311	-1.704	-4.226	-2.376
07	1.233	-3.501	-4.089	-0.649
08	-2.819	-3.861	-3.051	1.354
09	0.254	-2.417	-3.051	0.945
10	1.38	-4.875	-4.948	-4.523
11	-2.669	-3.184	-3.121	1.347
12	-3.969	-4.089	0.72	0.647
13	-0.73	1.138	-1.942	-1.371
14	1.221	-2.423	-0.716	-3.416
15	-1.044	-0.179	-0.505	0.792
16	-0.204	-0.452	0.501	-0.108
17	0.308	-0.076	-0.221	-0.093

Standard thresholds

P-value	Threshold
0.001	2.05181
0.0005	3.35826
0.0001	6.08156