PAX3.H12CORE.2.P.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PAX3.H12CORE.2.P.C
Gene (human)	PAX3 (GeneCards)
Gene synonyms (human)	HUP2
Gene (mouse)	Pax3
Gene synonyms (mouse)	Pax-3
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	C

Motif length	12
Consensus	WMYCAATTWnhn
GC content	30.37%
Information content (bits; total / per base)	9.614 / 0.801
Data sources	ChIP-Seq
Aligned words	892

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	pseudo-log-auROC, median	pseudo-log-auROC, best	Centrality, median	Centrality, best
Mouse	6 (39)	0.602	0.75	0.464	0.694	0.56	0.768	1.483	3.194	37.77	183.244

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.974	0.963	0.909	0.89	0.8	0.798
Overall, 4 experiments	best	0.998	0.996	0.976	0.973	0.818	0.82
Methyl HT-SELEX, 1 experiments	median	0.978	0.97	0.91	0.893	0.814	0.799
Methyl HT-SELEX, 1 experiments	best	0.978	0.97	0.91	0.893	0.814	0.799
Non-Methyl HT-SELEX, 3 experiments	median	0.969	0.955	0.908	0.886	0.786	0.798
Non-Methyl HT-SELEX, 3 experiments	best	0.998	0.996	0.976	0.973	0.818	0.82

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Paired box factors {3.2} (TFClass)
TF family	PD+HD {3.2.1} (TFClass)
TF subfamily	PAX3-like {3.2.1.1} (TFClass)
TFClass ID	TFClass: 3.2.1.1.1
HGNC	HGNC:8617
MGI	MGI:97487
EntrezGene (human)	GeneID:5077 (SSTAR profile)
EntrezGene (mouse)	GeneID:18505 (SSTAR profile)
UniProt ID (human)	PAX3_HUMAN
UniProt ID (mouse)	PAX3_MOUSE
UniProt AC (human)	P23760 (TFClass)
UniProt AC (mouse)	P24610 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 6 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	PAX3.H12CORE.2.P.C.pcm
PWM	PAX3.H12CORE.2.P.C.pwm
PFM	PAX3.H12CORE.2.P.C.pfm
Alignment	PAX3.H12CORE.2.P.C.words.tsv
Threshold to P-value map	PAX3.H12CORE.2.P.C.thr
Motif in other formats
JASPAR format	PAX3.H12CORE.2.P.C_jaspar_format.txt
MEME format	PAX3.H12CORE.2.P.C_meme_format.meme
Transfac format	PAX3.H12CORE.2.P.C_transfac_format.txt
Homer format	PAX3.H12CORE.2.P.C_homer_format_0.001.txt PAX3.H12CORE.2.P.C_homer_format_0.0005.txt PAX3.H12CORE.2.P.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	679.0	63.0	73.0	77.0
02	654.0	97.0	50.0	91.0
03	42.0	120.0	69.0	661.0
04	23.0	742.0	75.0	52.0
05	703.0	133.0	45.0	11.0
06	758.0	47.0	70.0	17.0
07	7.0	7.0	18.0	860.0
08	6.0	37.0	142.0	707.0
09	645.0	17.0	27.0	203.0
10	168.0	255.0	286.0	183.0
11	269.0	342.0	103.0	178.0
12	212.0	297.0	136.0	247.0

PFM

	A	C	G	T
01	0.761	0.071	0.082	0.086
02	0.733	0.109	0.056	0.102
03	0.047	0.135	0.077	0.741
04	0.026	0.832	0.084	0.058
05	0.788	0.149	0.05	0.012
06	0.85	0.053	0.078	0.019
07	0.008	0.008	0.02	0.964
08	0.007	0.041	0.159	0.793
09	0.723	0.019	0.03	0.228
10	0.188	0.286	0.321	0.205
11	0.302	0.383	0.115	0.2
12	0.238	0.333	0.152	0.277

PWM

	A	C	G	T
01	1.108	-1.245	-1.101	-1.049
02	1.071	-0.823	-1.469	-0.885
03	-1.637	-0.613	-1.156	1.082
04	-2.208	1.197	-1.075	-1.431
05	1.143	-0.512	-1.571	-2.873
06	1.218	-1.529	-1.142	-2.486
07	-3.252	-3.252	-2.434	1.344
08	-3.374	-1.759	-0.447	1.149
09	1.057	-2.486	-2.058	-0.093
10	-0.281	0.133	0.247	-0.196
11	0.186	0.425	-0.764	-0.223
12	-0.05	0.285	-0.49	0.101

Standard thresholds

P-value	Threshold
0.001	4.77486
0.0005	5.563215
0.0001	7.171625