FOXR2.H12RSNP.0.M.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	FOXR2.H12RSNP.0.M.C
Gene (human)	FOXR2 (GeneCards)
Gene synonyms (human)	FOXN6
Gene (mouse)	Foxr2
Gene synonyms (mouse)	Foxn6
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	C

Motif length	17
Consensus	dbRTTTATGTWTAYRYn
GC content	21.19%
Information content (bits; total / per base)	19.166 / 1.127
Data sources	Methyl-HT-SELEX
Aligned words	1608

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Methyl HT-SELEX, 1 experiments	median	0.994	0.992	0.937	0.931	0.778	0.795
Methyl HT-SELEX, 1 experiments	best	0.994	0.992	0.937	0.931	0.778	0.795

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.922	0.321	0.901	0.553
batch 2	0.606	0.098	0.595	0.55

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.H12RSNP.0.M.C.pcm
PWM	FOXR2.H12RSNP.0.M.C.pwm
PFM	FOXR2.H12RSNP.0.M.C.pfm
Alignment	FOXR2.H12RSNP.0.M.C.words.tsv
Threshold to P-value map	FOXR2.H12RSNP.0.M.C.thr
Motif in other formats
JASPAR format	FOXR2.H12RSNP.0.M.C_jaspar_format.txt
MEME format	FOXR2.H12RSNP.0.M.C_meme_format.meme
Transfac format	FOXR2.H12RSNP.0.M.C_transfac_format.txt
Homer format	FOXR2.H12RSNP.0.M.C_homer_format_0.001.txt FOXR2.H12RSNP.0.M.C_homer_format_0.0005.txt FOXR2.H12RSNP.0.M.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	724.5	112.5	353.5	417.5
02	80.0	656.0	167.0	705.0
03	1117.0	78.0	305.0	108.0
04	3.0	14.0	12.0	1579.0
05	279.0	27.0	57.0	1245.0
06	2.0	3.0	0.0	1603.0
07	1607.0	0.0	1.0	0.0
08	0.0	117.0	97.0	1394.0
09	304.0	0.0	1304.0	0.0
10	0.0	53.0	0.0	1555.0
11	763.0	82.0	4.0	759.0
12	1.0	3.0	1.0	1603.0
13	1522.0	1.0	78.0	7.0
14	5.0	401.0	86.0	1116.0
15	790.0	58.0	709.0	51.0
16	113.25	295.25	85.25	1114.25
17	521.5	280.5	351.5	454.5

PFM

	A	C	G	T
01	0.451	0.07	0.22	0.26
02	0.05	0.408	0.104	0.438
03	0.695	0.049	0.19	0.067
04	0.002	0.009	0.007	0.982
05	0.174	0.017	0.035	0.774
06	0.001	0.002	0.0	0.997
07	0.999	0.0	0.001	0.0
08	0.0	0.073	0.06	0.867
09	0.189	0.0	0.811	0.0
10	0.0	0.033	0.0	0.967
11	0.475	0.051	0.002	0.472
12	0.001	0.002	0.001	0.997
13	0.947	0.001	0.049	0.004
14	0.003	0.249	0.053	0.694
15	0.491	0.036	0.441	0.032
16	0.07	0.184	0.053	0.693
17	0.324	0.174	0.219	0.283

PWM

	A	C	G	T
01	0.587	-1.262	-0.128	0.038
02	-1.596	0.488	-0.872	0.56
03	1.019	-1.621	-0.275	-1.302
04	-4.423	-3.238	-3.373	1.365
05	-0.363	-2.639	-1.926	1.127
06	-4.654	-4.423	-5.388	1.38
07	1.382	-5.388	-4.955	-5.388
08	-5.388	-1.223	-1.407	1.24
09	-0.278	-5.388	1.174	-5.388
10	-5.388	-1.997	-5.388	1.349
11	0.639	-1.572	-4.235	0.633
12	-4.955	-4.423	-4.955	1.38
13	1.328	-4.955	-1.621	-3.821
14	-4.077	-0.002	-1.525	1.018
15	0.673	-1.909	0.565	-2.034
16	-1.255	-0.307	-1.534	1.017
17	0.259	-0.358	-0.134	0.122

Standard thresholds

P-value	Threshold
0.001	-0.56994
0.0005	1.07281
0.0001	4.50201