FOXR2.H12INVIVO.0.M.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	FOXR2.H12INVIVO.0.M.D
Gene (human)	FOXR2 (GeneCards)
Gene synonyms (human)	FOXN6
Gene (mouse)	Foxr2
Gene synonyms (mouse)	Foxn6
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	17
Consensus	dbRTWTAYRTWTAYRYn
GC content	24.35%
Information content (bits; total / per base)	14.357 / 0.845
Data sources	Methyl-HT-SELEX
Aligned words	9730

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Methyl HT-SELEX, 1 experiments	median	0.994	0.992	0.943	0.936	0.785	0.801
Methyl HT-SELEX, 1 experiments	best	0.994	0.992	0.943	0.936	0.785	0.801

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.894	0.281	0.876	0.569
batch 2	0.544	0.09	0.651	0.6

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Fork head/winged helix factors {3.3} (TFClass)
TF family	FOX {3.3.1} (TFClass)
TF subfamily	FOXR {3.3.1.18} (TFClass)
TFClass ID	TFClass: 3.3.1.18.2
HGNC	HGNC:30469
MGI	MGI:3511682
EntrezGene (human)	GeneID:139628 (SSTAR profile)
EntrezGene (mouse)	GeneID:436240 (SSTAR profile)
UniProt ID (human)	FOXR2_HUMAN
UniProt ID (mouse)	FOXR2_MOUSE
UniProt AC (human)	Q6PJQ5 (TFClass)
UniProt AC (mouse)	Q3UM89 (TFClass)
GRECO-DB-TF	yes

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

PCM	FOXR2.H12INVIVO.0.M.D.pcm
PWM	FOXR2.H12INVIVO.0.M.D.pwm
PFM	FOXR2.H12INVIVO.0.M.D.pfm
Alignment	FOXR2.H12INVIVO.0.M.D.words.tsv
Threshold to P-value map	FOXR2.H12INVIVO.0.M.D.thr
Motif in other formats
JASPAR format	FOXR2.H12INVIVO.0.M.D_jaspar_format.txt
MEME format	FOXR2.H12INVIVO.0.M.D_meme_format.meme
Transfac format	FOXR2.H12INVIVO.0.M.D_transfac_format.txt
Homer format	FOXR2.H12INVIVO.0.M.D_homer_format_0.001.txt FOXR2.H12INVIVO.0.M.D_homer_format_0.0005.txt FOXR2.H12INVIVO.0.M.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3727.75	1163.75	2222.75	2615.75
02	1014.0	3185.0	1464.0	4067.0
03	5854.0	982.0	1769.0	1125.0
04	303.0	444.0	530.0	8453.0
05	2227.0	509.0	948.0	6046.0
06	327.0	328.0	92.0	8983.0
07	9153.0	17.0	403.0	157.0
08	43.0	1761.0	1126.0	6800.0
09	3821.0	39.0	5774.0	96.0
10	0.0	793.0	8.0	8929.0
11	4729.0	665.0	118.0	4218.0
12	68.0	59.0	78.0	9525.0
13	8490.0	95.0	974.0	171.0
14	162.0	2461.0	853.0	6254.0
15	4353.0	663.0	4128.0	586.0
16	858.0	2053.0	791.0	6028.0
17	3195.5	1796.5	1989.5	2748.5

PFM

	A	C	G	T
01	0.383	0.12	0.228	0.269
02	0.104	0.327	0.15	0.418
03	0.602	0.101	0.182	0.116
04	0.031	0.046	0.054	0.869
05	0.229	0.052	0.097	0.621
06	0.034	0.034	0.009	0.923
07	0.941	0.002	0.041	0.016
08	0.004	0.181	0.116	0.699
09	0.393	0.004	0.593	0.01
10	0.0	0.082	0.001	0.918
11	0.486	0.068	0.012	0.434
12	0.007	0.006	0.008	0.979
13	0.873	0.01	0.1	0.018
14	0.017	0.253	0.088	0.643
15	0.447	0.068	0.424	0.06
16	0.088	0.211	0.081	0.62
17	0.328	0.185	0.204	0.282

PWM

	A	C	G	T
01	0.427	-0.736	-0.09	0.073
02	-0.874	0.269	-0.507	0.514
03	0.878	-0.906	-0.318	-0.77
04	-2.076	-1.697	-1.52	1.245
05	-0.088	-1.561	-0.941	0.91
06	-2.001	-1.998	-3.251	1.306
07	1.324	-4.838	-1.793	-2.727
08	-3.984	-0.323	-0.769	1.027
09	0.451	-4.077	0.864	-3.21
10	-6.967	-1.119	-5.466	1.3
11	0.664	-1.294	-3.008	0.55
12	-3.545	-3.682	-3.412	1.364
13	1.249	-3.22	-0.914	-2.643
14	-2.696	0.012	-1.046	0.944
15	0.582	-1.297	0.528	-1.42
16	-1.04	-0.169	-1.121	0.907
17	0.273	-0.303	-0.201	0.122

Standard thresholds

P-value	Threshold
0.001	3.18036
0.0005	4.33121
0.0001	6.70951