NR2F6.H12INVIVO.1.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NR2F6.H12INVIVO.1.PSM.A
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	A

Motif length	12
Consensus	nvdRGGTCAddn
GC content	49.6%
Information content (bits; total / per base)	10.239 / 0.853
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	8013

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)	0.887	0.903	0.792	0.808	0.866	0.885	2.993	3.143	262.0	310.244

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 11 experiments	median	0.955	0.932	0.898	0.869	0.775	0.767
Overall, 11 experiments	best	0.998	0.998	0.992	0.99	0.981	0.972
Methyl HT-SELEX, 3 experiments	median	0.99	0.983	0.984	0.974	0.974	0.96
Methyl HT-SELEX, 3 experiments	best	0.996	0.994	0.991	0.986	0.979	0.97
Non-Methyl HT-SELEX, 8 experiments	median	0.81	0.811	0.662	0.679	0.585	0.606
Non-Methyl HT-SELEX, 8 experiments	best	0.998	0.998	0.992	0.99	0.981	0.972

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.H12INVIVO.1.PSM.A.pcm
PWM	NR2F6.H12INVIVO.1.PSM.A.pwm
PFM	NR2F6.H12INVIVO.1.PSM.A.pfm
Alignment	NR2F6.H12INVIVO.1.PSM.A.words.tsv
Threshold to P-value map	NR2F6.H12INVIVO.1.PSM.A.thr
Motif in other formats
JASPAR format	NR2F6.H12INVIVO.1.PSM.A_jaspar_format.txt
MEME format	NR2F6.H12INVIVO.1.PSM.A_meme_format.meme
Transfac format	NR2F6.H12INVIVO.1.PSM.A_transfac_format.txt
Homer format	NR2F6.H12INVIVO.1.PSM.A_homer_format_0.001.txt NR2F6.H12INVIVO.1.PSM.A_homer_format_0.0005.txt NR2F6.H12INVIVO.1.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1692.0	2993.0	1795.0	1533.0
02	4152.75	1236.75	1428.75	1194.75
03	4021.0	637.0	2612.0	743.0
04	5677.0	142.0	1902.0	292.0
05	2.0	7.0	7991.0	13.0
06	4.0	5.0	7981.0	23.0
07	6.0	17.0	26.0	7964.0
08	47.0	7364.0	290.0	312.0
09	6460.0	238.0	1050.0	265.0
10	2975.0	1212.0	1241.0	2585.0
11	2803.0	911.0	2403.0	1896.0
12	1943.75	1159.75	3049.75	1859.75

PFM

	A	C	G	T
01	0.211	0.374	0.224	0.191
02	0.518	0.154	0.178	0.149
03	0.502	0.079	0.326	0.093
04	0.708	0.018	0.237	0.036
05	0.0	0.001	0.997	0.002
06	0.0	0.001	0.996	0.003
07	0.001	0.002	0.003	0.994
08	0.006	0.919	0.036	0.039
09	0.806	0.03	0.131	0.033
10	0.371	0.151	0.155	0.323
11	0.35	0.114	0.3	0.237
12	0.243	0.145	0.381	0.232

PWM

	A	C	G	T
01	-0.169	0.401	-0.11	-0.267
02	0.728	-0.482	-0.338	-0.516
03	0.696	-1.143	0.265	-0.99
04	1.041	-2.632	-0.052	-1.919
05	-6.157	-5.379	1.383	-4.879
06	-5.772	-5.623	1.381	-4.375
07	-5.494	-4.646	-4.263	1.379
08	-3.707	1.301	-1.926	-1.853
09	1.17	-2.122	-0.645	-2.015
10	0.395	-0.502	-0.478	0.255
11	0.336	-0.787	0.182	-0.055
12	-0.03	-0.546	0.42	-0.074

Standard thresholds

P-value	Threshold
0.001	4.762965
0.0005	5.753465
0.0001	7.584935