NR2F6.H12RSNP.1.PSM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NR2F6.H12RSNP.1.PSM.D
Gene (human)	NR2F6 (GeneCards)
Gene synonyms (human)	EAR2, ERBAL2
Gene (mouse)	Nr2f6
Gene synonyms (mouse)	Ear-2, Ear2, Erbal2
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	12
Consensus	nddRGGTCRnnn
GC content	50.31%
Information content (bits; total / per base)	8.787 / 0.732
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9816

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
Human	3 (21)	0.89	0.905	0.793	0.812	0.866	0.885	3.005	3.155	253.046	308.959

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 11 experiments	median	0.957	0.935	0.899	0.871	0.78	0.77
Overall, 11 experiments	best	0.999	0.998	0.993	0.99	0.982	0.973
Methyl HT-SELEX, 3 experiments	median	0.99	0.984	0.985	0.976	0.975	0.962
Methyl HT-SELEX, 3 experiments	best	0.996	0.995	0.992	0.988	0.98	0.973
Non-Methyl HT-SELEX, 8 experiments	median	0.812	0.813	0.667	0.682	0.591	0.61
Non-Methyl HT-SELEX, 8 experiments	best	0.999	0.998	0.993	0.99	0.982	0.973

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	Nuclear receptors with C4 zinc fingers {2.1} (TFClass)
TF family	RXR-related receptors {2.1.3} (TFClass)
TF subfamily	COUP (NR2F) {2.1.3.5} (TFClass)
TFClass ID	TFClass: 2.1.3.5.3
HGNC	HGNC:7977
MGI	MGI:1352453
EntrezGene (human)	GeneID:2063 (SSTAR profile)
EntrezGene (mouse)	GeneID:13864 (SSTAR profile)
UniProt ID (human)	NR2F6_HUMAN
UniProt ID (mouse)	NR2F6_MOUSE
UniProt AC (human)	P10588 (TFClass)
UniProt AC (mouse)	P43136 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	3 human, 0 mouse
HT-SELEX	8
Methyl-HT-SELEX	3

PCM	NR2F6.H12RSNP.1.PSM.D.pcm
PWM	NR2F6.H12RSNP.1.PSM.D.pwm
PFM	NR2F6.H12RSNP.1.PSM.D.pfm
Alignment	NR2F6.H12RSNP.1.PSM.D.words.tsv
Threshold to P-value map	NR2F6.H12RSNP.1.PSM.D.thr
Motif in other formats
JASPAR format	NR2F6.H12RSNP.1.PSM.D_jaspar_format.txt
MEME format	NR2F6.H12RSNP.1.PSM.D_meme_format.meme
Transfac format	NR2F6.H12RSNP.1.PSM.D_transfac_format.txt
Homer format	NR2F6.H12RSNP.1.PSM.D_homer_format_0.001.txt NR2F6.H12RSNP.1.PSM.D_homer_format_0.0005.txt NR2F6.H12RSNP.1.PSM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2137.0	3421.0	2309.0	1949.0
02	4713.75	1546.75	1931.75	1623.75
03	4691.0	867.0	3250.0	1008.0
04	6766.0	288.0	2309.0	453.0
05	29.0	47.0	9617.0	123.0
06	57.0	59.0	9568.0	132.0
07	50.0	83.0	190.0	9493.0
08	233.0	8137.0	873.0	573.0
09	7140.0	529.0	1590.0	557.0
10	3339.0	1580.0	1758.0	3139.0
11	3233.25	1255.25	2927.25	2400.25
12	2339.75	1484.75	3641.75	2349.75

PFM

	A	C	G	T
01	0.218	0.349	0.235	0.199
02	0.48	0.158	0.197	0.165
03	0.478	0.088	0.331	0.103
04	0.689	0.029	0.235	0.046
05	0.003	0.005	0.98	0.013
06	0.006	0.006	0.975	0.013
07	0.005	0.008	0.019	0.967
08	0.024	0.829	0.089	0.058
09	0.727	0.054	0.162	0.057
10	0.34	0.161	0.179	0.32
11	0.329	0.128	0.298	0.245
12	0.238	0.151	0.371	0.239

PWM

	A	C	G	T
01	-0.138	0.332	-0.061	-0.23
02	0.652	-0.461	-0.239	-0.413
03	0.647	-1.039	0.281	-0.888
04	1.014	-2.136	-0.061	-1.685
05	-4.363	-3.909	1.365	-2.976
06	-3.724	-3.691	1.36	-2.906
07	-3.849	-3.36	-2.547	1.352
08	-2.346	1.198	-1.032	-1.452
09	1.067	-1.531	-0.433	-1.48
10	0.308	-0.44	-0.333	0.246
11	0.276	-0.669	0.176	-0.022
12	-0.048	-0.502	0.394	-0.043

Standard thresholds

P-value	Threshold
0.001	5.06346
0.0005	5.84567
0.0001	7.35383