PITX3.H12RSNP.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PITX3.H12RSNP.1.S.B
Gene (human)	PITX3 (GeneCards)
Gene synonyms (human)	PTX3
Gene (mouse)	Pitx3
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	20
Consensus	nbdddWWhhnbGGATTARbb
GC content	42.88%
Information content (bits; total / per base)	14.911 / 0.746
Data sources	HT-SELEX
Aligned words	933

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.975	0.957	0.954	0.927	0.871	0.859
Overall, 6 experiments	best	0.994	0.991	0.975	0.968	0.94	0.915
Methyl HT-SELEX, 2 experiments	median	0.97	0.947	0.956	0.929	0.919	0.89
Methyl HT-SELEX, 2 experiments	best	0.977	0.959	0.968	0.946	0.94	0.915
Non-Methyl HT-SELEX, 4 experiments	median	0.975	0.959	0.932	0.913	0.828	0.818
Non-Methyl HT-SELEX, 4 experiments	best	0.994	0.991	0.975	0.968	0.93	0.904

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.663	0.26	0.611	0.412

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

PCM	PITX3.H12RSNP.1.S.B.pcm
PWM	PITX3.H12RSNP.1.S.B.pwm
PFM	PITX3.H12RSNP.1.S.B.pfm
Alignment	PITX3.H12RSNP.1.S.B.words.tsv
Threshold to P-value map	PITX3.H12RSNP.1.S.B.thr
Motif in other formats
JASPAR format	PITX3.H12RSNP.1.S.B_jaspar_format.txt
MEME format	PITX3.H12RSNP.1.S.B_meme_format.meme
Transfac format	PITX3.H12RSNP.1.S.B_transfac_format.txt
Homer format	PITX3.H12RSNP.1.S.B_homer_format_0.001.txt PITX3.H12RSNP.1.S.B_homer_format_0.0005.txt PITX3.H12RSNP.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	162.75	269.75	332.75	167.75
02	143.75	211.75	428.75	148.75
03	194.0	110.0	443.0	186.0
04	258.0	22.0	398.0	255.0
05	330.0	24.0	234.0	345.0
06	460.0	54.0	27.0	392.0
07	314.0	94.0	47.0	478.0
08	304.0	202.0	97.0	330.0
09	333.0	287.0	156.0	157.0
10	279.0	270.0	255.0	129.0
11	98.0	211.0	365.0	259.0
12	19.0	7.0	895.0	12.0
13	0.0	2.0	930.0	1.0
14	909.0	23.0	1.0	0.0
15	0.0	2.0	0.0	931.0
16	0.0	1.0	1.0	931.0
17	926.0	1.0	1.0	5.0
18	512.0	41.0	343.0	37.0
19	67.0	144.0	407.0	315.0
20	116.25	195.25	468.25	153.25

PFM

	A	C	G	T
01	0.174	0.289	0.357	0.18
02	0.154	0.227	0.46	0.159
03	0.208	0.118	0.475	0.199
04	0.277	0.024	0.427	0.273
05	0.354	0.026	0.251	0.37
06	0.493	0.058	0.029	0.42
07	0.337	0.101	0.05	0.512
08	0.326	0.217	0.104	0.354
09	0.357	0.308	0.167	0.168
10	0.299	0.289	0.273	0.138
11	0.105	0.226	0.391	0.278
12	0.02	0.008	0.959	0.013
13	0.0	0.002	0.997	0.001
14	0.974	0.025	0.001	0.0
15	0.0	0.002	0.0	0.998
16	0.0	0.001	0.001	0.998
17	0.992	0.001	0.001	0.005
18	0.549	0.044	0.368	0.04
19	0.072	0.154	0.436	0.338
20	0.125	0.209	0.502	0.164

PWM

	A	C	G	T
01	-0.357	0.144	0.353	-0.327
02	-0.48	-0.096	0.605	-0.446
03	-0.183	-0.744	0.638	-0.225
04	0.1	-2.294	0.531	0.089
05	0.345	-2.213	0.003	0.389
06	0.676	-1.439	-2.102	0.516
07	0.295	-0.898	-1.574	0.714
08	0.263	-0.143	-0.867	0.345
09	0.354	0.206	-0.399	-0.392
10	0.178	0.145	0.089	-0.586
11	-0.857	-0.099	0.445	0.104
12	-2.429	-3.295	1.339	-2.841
13	-4.923	-4.148	1.378	-4.463
14	1.355	-2.252	-4.463	-4.923
15	-4.923	-4.148	-4.923	1.379
16	-4.923	-4.463	-4.463	1.379
17	1.373	-4.463	-4.463	-3.556
18	0.782	-1.705	0.383	-1.803
19	-1.23	-0.478	0.554	0.299
20	-0.689	-0.176	0.693	-0.416

Standard thresholds

P-value	Threshold
0.001	2.35806
0.0005	3.71181
0.0001	6.49606