PITX3.H14INVIVO.1.S.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PITX3.H14INVIVO.1.S.D
Gene (human)	PITX3 (GeneCards)
Gene synonyms (human)	PTX3
Gene (mouse)	Pitx3
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	20
Consensus	vvdddWWhvnbGGATTAvbb
GC content	43.28%
Information content (bits; total / per base)	14.165 / 0.708
Data sources	HT-SELEX
Aligned words	446
Previous names	PITX3.H12INVIVO.1.S.D

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.976	0.959	0.955	0.928	0.872	0.86
Overall, 6 experiments	best	0.994	0.991	0.977	0.97	0.943	0.918
Methyl HT-SELEX, 2 experiments	median	0.97	0.948	0.956	0.93	0.921	0.892
Methyl HT-SELEX, 2 experiments	best	0.977	0.96	0.968	0.947	0.943	0.918
Non-Methyl HT-SELEX, 4 experiments	median	0.976	0.961	0.934	0.916	0.831	0.821
Non-Methyl HT-SELEX, 4 experiments	best	0.994	0.991	0.977	0.97	0.935	0.909

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.651	0.275	0.591	0.376

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	PITX {3.1.3.19} (TFClass)
TFClass ID	TFClass: 3.1.3.19.3
HGNC	HGNC:9006
MGI	MGI:1100498
EntrezGene (human)	GeneID:5309 (SSTAR profile)
EntrezGene (mouse)	GeneID:18742 (SSTAR profile)
UniProt ID (human)	PITX3_HUMAN
UniProt ID (mouse)	PITX3_MOUSE
UniProt AC (human)	O75364 (TFClass)
UniProt AC (mouse)	O35160 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	4
Methyl-HT-SELEX	2
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	PITX3.H14INVIVO.1.S.D.pcm
PWM	PITX3.H14INVIVO.1.S.D.pwm
PFM	PITX3.H14INVIVO.1.S.D.pfm
Threshold to P-value map	PITX3.H14INVIVO.1.S.D.thr
Motif in other formats
JASPAR format	PITX3.H14INVIVO.1.S.D_jaspar_format.txt
MEME format	PITX3.H14INVIVO.1.S.D_meme_format.meme
Transfac format	PITX3.H14INVIVO.1.S.D_transfac_format.txt
Homer format	PITX3.H14INVIVO.1.S.D_homer_format_0.001.txt PITX3.H14INVIVO.1.S.D_homer_format_0.0005.txt PITX3.H14INVIVO.1.S.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	81.5	122.5	177.5	64.5
02	85.25	101.25	195.25	64.25
03	86.0	61.0	218.0	81.0
04	142.0	20.0	170.0	114.0
05	147.0	15.0	122.0	162.0
06	215.0	26.0	23.0	182.0
07	162.0	48.0	20.0	216.0
08	139.0	81.0	45.0	181.0
09	181.0	106.0	92.0	67.0
10	149.0	103.0	113.0	81.0
11	50.0	105.0	208.0	83.0
12	11.0	9.0	419.0	7.0
13	1.0	1.0	444.0	0.0
14	429.0	17.0	0.0	0.0
15	0.0	0.0	0.0	446.0
16	0.0	2.0	1.0	443.0
17	440.0	2.0	0.0	4.0
18	203.0	44.0	166.0	33.0
19	42.5	85.5	201.5	116.5
20	72.0	91.0	205.0	78.0

PFM

	A	C	G	T
01	0.183	0.275	0.398	0.145
02	0.191	0.227	0.438	0.144
03	0.193	0.137	0.489	0.182
04	0.318	0.045	0.381	0.256
05	0.33	0.034	0.274	0.363
06	0.482	0.058	0.052	0.408
07	0.363	0.108	0.045	0.484
08	0.312	0.182	0.101	0.406
09	0.406	0.238	0.206	0.15
10	0.334	0.231	0.253	0.182
11	0.112	0.235	0.466	0.186
12	0.025	0.02	0.939	0.016
13	0.002	0.002	0.996	0.0
14	0.962	0.038	0.0	0.0
15	0.0	0.0	0.0	1.0
16	0.0	0.004	0.002	0.993
17	0.987	0.004	0.0	0.009
18	0.455	0.099	0.372	0.074
19	0.095	0.192	0.452	0.261
20	0.161	0.204	0.46	0.175

PWM

	A	C	G	T
01	-0.308	0.093	0.46	-0.538
02	-0.264	-0.095	0.554	-0.541
03	-0.256	-0.592	0.664	-0.315
04	0.239	-1.658	0.417	0.022
05	0.273	-1.923	0.089	0.369
06	0.65	-1.413	-1.528	0.485
07	0.369	-0.825	-1.658	0.655
08	0.218	-0.315	-0.888	0.479
09	0.479	-0.05	-0.189	-0.5
10	0.287	-0.078	0.013	-0.315
11	-0.786	-0.059	0.617	-0.291
12	-2.2	-2.374	1.314	-2.585
13	-3.801	-3.801	1.372	-4.306
14	1.337	-1.808	-4.306	-4.306
15	-4.306	-4.306	-4.306	1.376
16	-4.306	-3.468	-3.801	1.369
17	1.363	-3.468	-4.306	-3.018
18	0.593	-0.909	0.394	-1.186
19	-0.943	-0.261	0.586	0.043
20	-0.43	-0.2	0.603	-0.352

Standard thresholds

P-value	Threshold
0.001	3.16231
0.0005	4.36321
0.0001	6.87746