FOXD2.H12INVIVO.1.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	FOXD2.H12INVIVO.1.SM.D
Gene (human)	FOXD2 (GeneCards)
Gene synonyms (human)	FKHL17, FREAC9
Gene (mouse)	Foxd2
Gene synonyms (mouse)	Mf2
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	15
Consensus	nTGTTWKYbTWdbbn
GC content	32.62%
Information content (bits; total / per base)	11.134 / 0.742
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9679

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.971	0.955	0.951	0.928	0.88	0.866
Overall, 4 experiments	best	0.991	0.986	0.985	0.976	0.972	0.958
Methyl HT-SELEX, 1 experiments	median	0.991	0.986	0.985	0.976	0.972	0.958
Methyl HT-SELEX, 1 experiments	best	0.991	0.986	0.985	0.976	0.972	0.958
Non-Methyl HT-SELEX, 3 experiments	median	0.959	0.935	0.93	0.899	0.806	0.8
Non-Methyl HT-SELEX, 3 experiments	best	0.984	0.975	0.972	0.957	0.953	0.932

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	FOXD {3.3.1.4} (TFClass)
TFClass ID	TFClass: 3.3.1.4.2
HGNC	HGNC:3803
MGI	MGI:1347471
EntrezGene (human)	GeneID:2306 (SSTAR profile)
EntrezGene (mouse)	GeneID:17301 (SSTAR profile)
UniProt ID (human)	FOXD2_HUMAN
UniProt ID (mouse)	FOXD2_MOUSE
UniProt AC (human)	O60548 (TFClass)
UniProt AC (mouse)	O35392 (TFClass)
GRECO-DB-TF	yes

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

PCM	FOXD2.H12INVIVO.1.SM.D.pcm
PWM	FOXD2.H12INVIVO.1.SM.D.pwm
PFM	FOXD2.H12INVIVO.1.SM.D.pfm
Alignment	FOXD2.H12INVIVO.1.SM.D.words.tsv
Threshold to P-value map	FOXD2.H12INVIVO.1.SM.D.thr
Motif in other formats
JASPAR format	FOXD2.H12INVIVO.1.SM.D_jaspar_format.txt
MEME format	FOXD2.H12INVIVO.1.SM.D_meme_format.meme
Transfac format	FOXD2.H12INVIVO.1.SM.D_transfac_format.txt
Homer format	FOXD2.H12INVIVO.1.SM.D_homer_format_0.001.txt FOXD2.H12INVIVO.1.SM.D_homer_format_0.0005.txt FOXD2.H12INVIVO.1.SM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2627.0	1724.0	2098.0	3230.0
02	99.25	795.25	48.25	8736.25
03	3788.0	21.0	5869.0	1.0
04	3.0	27.0	23.0	9626.0
05	3.0	7.0	77.0	9592.0
06	6382.0	1.0	881.0	2415.0
07	1504.0	11.0	2047.0	6117.0
08	6.0	2553.0	1111.0	6009.0
09	1170.0	1173.0	4485.0	2851.0
10	316.0	1098.0	407.0	7858.0
11	4873.0	135.0	580.0	4091.0
12	4161.0	557.0	3930.0	1031.0
13	1136.0	2119.0	4399.0	2025.0
14	1711.25	2086.25	4064.25	1817.25
15	2237.25	1889.25	3150.25	2402.25

PFM

	A	C	G	T
01	0.271	0.178	0.217	0.334
02	0.01	0.082	0.005	0.903
03	0.391	0.002	0.606	0.0
04	0.0	0.003	0.002	0.995
05	0.0	0.001	0.008	0.991
06	0.659	0.0	0.091	0.25
07	0.155	0.001	0.211	0.632
08	0.001	0.264	0.115	0.621
09	0.121	0.121	0.463	0.295
10	0.033	0.113	0.042	0.812
11	0.503	0.014	0.06	0.423
12	0.43	0.058	0.406	0.107
13	0.117	0.219	0.454	0.209
14	0.177	0.216	0.42	0.188
15	0.231	0.195	0.325	0.248

PWM

	A	C	G	T
01	0.082	-0.339	-0.143	0.289
02	-3.172	-1.111	-3.87	1.283
03	0.448	-4.644	0.885	-6.6
04	-6.126	-4.415	-4.562	1.38
05	-6.126	-5.563	-3.419	1.377
06	0.969	-6.6	-1.009	-0.002
07	-0.475	-5.205	-0.167	0.927
08	-5.677	0.054	-0.777	0.909
09	-0.726	-0.723	0.617	0.164
10	-2.029	-0.789	-1.778	1.177
11	0.7	-2.87	-1.425	0.525
12	0.542	-1.466	0.485	-0.852
13	-0.755	-0.133	0.597	-0.178
14	-0.346	-0.148	0.518	-0.286
15	-0.078	-0.247	0.264	-0.007

Standard thresholds

P-value	Threshold
0.001	4.42546
0.0005	5.49751
0.0001	7.46961