PAX3.H14INVITRO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PAX3.H14INVITRO.0.PS.A
Gene (human)	PAX3 (GeneCards)
Gene synonyms (human)	HUP2
Gene (mouse)	Pax3
Gene synonyms (mouse)	Pax-3
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	15
Consensus	nvdbvGTCACGSYhn
GC content	55.31%
Information content (bits; total / per base)	13.514 / 0.901
Data sources	ChIP-Seq + HT-SELEX
Aligned words	9888
Previous names	PAX3.H12INVITRO.0.PS.A

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)	0.839	0.859	0.757	0.806	0.798	0.821	2.852	3.233	195.569	264.0

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.762	0.757	0.759	0.754	0.739	0.733
Overall, 4 experiments	best	0.999	0.999	0.998	0.998	0.99	0.988
Methyl HT-SELEX, 1 experiments	median	0.999	0.999	0.996	0.995	0.958	0.954
Methyl HT-SELEX, 1 experiments	best	0.999	0.999	0.996	0.995	0.958	0.954
Non-Methyl HT-SELEX, 3 experiments	median	0.526	0.515	0.522	0.513	0.519	0.511
Non-Methyl HT-SELEX, 3 experiments	best	0.999	0.999	0.998	0.998	0.99	0.988

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
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	PAX3.H14INVITRO.0.PS.A.pcm
PWM	PAX3.H14INVITRO.0.PS.A.pwm
PFM	PAX3.H14INVITRO.0.PS.A.pfm
Threshold to P-value map	PAX3.H14INVITRO.0.PS.A.thr
Motif in other formats
JASPAR format	PAX3.H14INVITRO.0.PS.A_jaspar_format.txt
MEME format	PAX3.H14INVITRO.0.PS.A_meme_format.meme
Transfac format	PAX3.H14INVITRO.0.PS.A_transfac_format.txt
Homer format	PAX3.H14INVITRO.0.PS.A_homer_format_0.001.txt PAX3.H14INVITRO.0.PS.A_homer_format_0.0005.txt PAX3.H14INVITRO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3258.25	1835.25	3151.25	1643.25
02	4425.5	1797.5	2024.5	1640.5
03	1754.0	1584.0	1637.0	4913.0
04	757.0	2939.0	955.0	5237.0
05	2460.0	4930.0	2074.0	424.0
06	131.0	62.0	9479.0	216.0
07	101.0	120.0	51.0	9616.0
08	41.0	9572.0	51.0	224.0
09	9832.0	33.0	14.0	9.0
10	39.0	9609.0	29.0	211.0
11	238.0	84.0	9540.0	26.0
12	56.0	5376.0	4391.0	65.0
13	928.0	1856.0	470.0	6634.0
14	2474.25	2313.25	1354.25	3746.25
15	3649.5	2493.5	2209.5	1535.5

PFM

	A	C	G	T
01	0.33	0.186	0.319	0.166
02	0.448	0.182	0.205	0.166
03	0.177	0.16	0.166	0.497
04	0.077	0.297	0.097	0.53
05	0.249	0.499	0.21	0.043
06	0.013	0.006	0.959	0.022
07	0.01	0.012	0.005	0.972
08	0.004	0.968	0.005	0.023
09	0.994	0.003	0.001	0.001
10	0.004	0.972	0.003	0.021
11	0.024	0.008	0.965	0.003
12	0.006	0.544	0.444	0.007
13	0.094	0.188	0.048	0.671
14	0.25	0.234	0.137	0.379
15	0.369	0.252	0.223	0.155

PWM

	A	C	G	T
01	0.276	-0.298	0.243	-0.408
02	0.582	-0.318	-0.199	-0.41
03	-0.343	-0.445	-0.412	0.686
04	-1.181	0.173	-0.95	0.75
05	-0.005	0.69	-0.175	-1.759
06	-2.921	-3.65	1.343	-2.428
07	-3.176	-3.007	-3.838	1.358
08	-4.046	1.353	-3.838	-2.392
09	1.38	-4.25	-5.023	-5.389
10	-4.093	1.357	-4.37	-2.451
11	-2.332	-3.356	1.35	-4.471
12	-3.748	0.776	0.574	-3.605
13	-0.978	-0.286	-1.656	0.987
14	0.001	-0.066	-0.601	0.415
15	0.389	0.009	-0.112	-0.476

Standard thresholds

P-value	Threshold
0.001	3.16471
0.0005	4.37111
0.0001	6.82706