SHOX2.H12INVIVO.0.S.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SHOX2.H12INVIVO.0.S.D
Gene (human)	SHOX2 (GeneCards)
Gene synonyms (human)	OG12X, SHOT
Gene (mouse)	Shox2
Gene synonyms (mouse)	Og12x, Prx3
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	18
Consensus	hWWWWddvYTAATTASbn
GC content	28.38%
Information content (bits; total / per base)	15.551 / 0.864
Data sources	HT-SELEX
Aligned words	6592

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 4 experiments	median	0.997	0.995	0.993	0.989	0.942	0.944
Non-Methyl HT-SELEX, 4 experiments	best	0.999	0.999	0.998	0.998	0.996	0.995

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	SHOX {3.1.3.25} (TFClass)
TFClass ID	TFClass: 3.1.3.25.2
HGNC	HGNC:10854
MGI	MGI:1201673
EntrezGene (human)	GeneID:6474 (SSTAR profile)
EntrezGene (mouse)	GeneID:20429 (SSTAR profile)
UniProt ID (human)	SHOX2_HUMAN
UniProt ID (mouse)	SHOX2_MOUSE
UniProt AC (human)	O60902 (TFClass)
UniProt AC (mouse)	P70390 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	4
Methyl-HT-SELEX	0

PCM	SHOX2.H12INVIVO.0.S.D.pcm
PWM	SHOX2.H12INVIVO.0.S.D.pwm
PFM	SHOX2.H12INVIVO.0.S.D.pfm
Alignment	SHOX2.H12INVIVO.0.S.D.words.tsv
Threshold to P-value map	SHOX2.H12INVIVO.0.S.D.thr
Motif in other formats
JASPAR format	SHOX2.H12INVIVO.0.S.D_jaspar_format.txt
MEME format	SHOX2.H12INVIVO.0.S.D_meme_format.meme
Transfac format	SHOX2.H12INVIVO.0.S.D_transfac_format.txt
Homer format	SHOX2.H12INVIVO.0.S.D_homer_format_0.001.txt SHOX2.H12INVIVO.0.S.D_homer_format_0.0005.txt SHOX2.H12INVIVO.0.S.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2612.0	943.0	572.0	2465.0
02	3066.25	259.25	150.25	3116.25
03	3597.0	25.0	107.0	2863.0
04	3354.0	60.0	265.0	2913.0
05	1819.0	212.0	919.0	3642.0
06	1239.0	549.0	1783.0	3021.0
07	1937.0	928.0	2470.0	1257.0
08	2289.0	947.0	2675.0	681.0
09	31.0	3658.0	910.0	1993.0
10	0.0	1919.0	0.0	4673.0
11	6592.0	0.0	0.0	0.0
12	6592.0	0.0	0.0	0.0
13	0.0	0.0	0.0	6592.0
14	0.0	0.0	0.0	6592.0
15	5978.0	0.0	614.0	0.0
16	1144.0	1346.0	4067.0	35.0
17	804.25	2803.25	1626.25	1358.25
18	1645.25	2210.25	1653.25	1083.25

PFM

	A	C	G	T
01	0.396	0.143	0.087	0.374
02	0.465	0.039	0.023	0.473
03	0.546	0.004	0.016	0.434
04	0.509	0.009	0.04	0.442
05	0.276	0.032	0.139	0.552
06	0.188	0.083	0.27	0.458
07	0.294	0.141	0.375	0.191
08	0.347	0.144	0.406	0.103
09	0.005	0.555	0.138	0.302
10	0.0	0.291	0.0	0.709
11	1.0	0.0	0.0	0.0
12	1.0	0.0	0.0	0.0
13	0.0	0.0	0.0	1.0
14	0.0	0.0	0.0	1.0
15	0.907	0.0	0.093	0.0
16	0.174	0.204	0.617	0.005
17	0.122	0.425	0.247	0.206
18	0.25	0.335	0.251	0.164

PWM

	A	C	G	T
01	0.46	-0.557	-1.056	0.402
02	0.62	-1.842	-2.382	0.636
03	0.78	-4.105	-2.715	0.552
04	0.71	-3.278	-1.821	0.569
05	0.099	-2.042	-0.583	0.792
06	-0.285	-1.097	0.079	0.605
07	0.161	-0.573	0.404	-0.27
08	0.328	-0.553	0.484	-0.882
09	-3.906	0.797	-0.593	0.19
10	-6.621	0.152	-6.621	1.041
11	1.385	-6.621	-6.621	-6.621
12	1.385	-6.621	-6.621	-6.621
13	-6.621	-6.621	-6.621	1.385
14	-6.621	-6.621	-6.621	1.385
15	1.288	-6.621	-0.985	-6.621
16	-0.364	-0.202	0.903	-3.792
17	-0.716	0.531	-0.013	-0.193
18	-0.002	0.293	0.003	-0.419

Standard thresholds

P-value	Threshold
0.001	0.16921
0.0005	1.93306
0.0001	5.96231