PITX3.H13RSNP.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PITX3.H13RSNP.0.SM.B
Gene (human)	PITX3 (GeneCards)
Gene synonyms (human)	PTX3
Gene (mouse)	Pitx3
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	11
Consensus	nbGGATTARbb
GC content	44.32%
Information content (bits; total / per base)	12.639 / 1.149
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9711
Previous names	PITX3.H12RSNP.0.SM.B

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.983	0.967	0.967	0.951	0.907	0.891
Overall, 6 experiments	best	0.993	0.988	0.988	0.981	0.958	0.94
Methyl HT-SELEX, 2 experiments	median	0.974	0.954	0.965	0.942	0.927	0.904
Methyl HT-SELEX, 2 experiments	best	0.982	0.967	0.978	0.961	0.958	0.939
Non-Methyl HT-SELEX, 4 experiments	median	0.983	0.97	0.967	0.952	0.877	0.874
Non-Methyl HT-SELEX, 4 experiments	best	0.993	0.988	0.988	0.981	0.958	0.94

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.65	0.298	0.6	0.42

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.H13RSNP.0.SM.B.pcm
PWM	PITX3.H13RSNP.0.SM.B.pwm
PFM	PITX3.H13RSNP.0.SM.B.pfm
Threshold to P-value map	PITX3.H13RSNP.0.SM.B.thr
Motif in other formats
JASPAR format	PITX3.H13RSNP.0.SM.B_jaspar_format.txt
MEME format	PITX3.H13RSNP.0.SM.B_meme_format.meme
Transfac format	PITX3.H13RSNP.0.SM.B_transfac_format.txt
Homer format	PITX3.H13RSNP.0.SM.B_homer_format_0.001.txt PITX3.H13RSNP.0.SM.B_homer_format_0.0005.txt PITX3.H13RSNP.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2386.75	2389.75	3221.75	1712.75
02	1349.5	2183.5	4426.5	1751.5
03	316.0	34.0	9318.0	43.0
04	0.0	0.0	9711.0	0.0
05	9710.0	1.0	0.0	0.0
06	0.0	0.0	0.0	9711.0
07	0.0	0.0	0.0	9711.0
08	9700.0	0.0	1.0	10.0
09	5048.0	546.0	3437.0	680.0
10	1108.75	2217.75	3683.75	2700.75
11	1592.25	1696.25	4476.25	1946.25

PFM

	A	C	G	T
01	0.246	0.246	0.332	0.176
02	0.139	0.225	0.456	0.18
03	0.033	0.004	0.96	0.004
04	0.0	0.0	1.0	0.0
05	1.0	0.0	0.0	0.0
06	0.0	0.0	0.0	1.0
07	0.0	0.0	0.0	1.0
08	0.999	0.0	0.0	0.001
09	0.52	0.056	0.354	0.07
10	0.114	0.228	0.379	0.278
11	0.164	0.175	0.461	0.2

PWM

	A	C	G	T
01	-0.017	-0.016	0.283	-0.348
02	-0.586	-0.106	0.6	-0.326
03	-2.033	-4.204	1.344	-3.982
04	-6.965	-6.965	1.386	-6.965
05	1.385	-6.603	-6.965	-6.965
06	-6.965	-6.965	-6.965	1.386
07	-6.965	-6.965	-6.965	1.386
08	1.384	-6.965	-6.603	-5.286
09	0.732	-1.489	0.347	-1.27
10	-0.783	-0.09	0.417	0.106
11	-0.421	-0.358	0.611	-0.221

Standard thresholds

P-value	Threshold
0.001	1.45296
0.0005	3.37508
0.0001	7.894515