NR6A1.H12INVIVO.2.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NR6A1.H12INVIVO.2.SM.B
Gene (human)	NR6A1 (GeneCards)
Gene synonyms (human)	GCNF
Gene (mouse)	Nr6a1
Gene synonyms (mouse)	Gcnf
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	B

Motif length	19
Consensus	nddYSAAGKTCAAGKKYRn
GC content	46.14%
Information content (bits; total / per base)	20.246 / 1.066
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9502

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
Mouse	1 (5)	0.778	0.793	0.683	0.697	0.748	0.759	2.959	3.089	169.509	178.022

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.98	0.981	0.79	0.813	0.646	0.685
Overall, 2 experiments	best	1.0	1.0	0.828	0.85	0.663	0.708
Methyl HT-SELEX, 1 experiments	median	1.0	1.0	0.828	0.85	0.663	0.708
Methyl HT-SELEX, 1 experiments	best	1.0	1.0	0.828	0.85	0.663	0.708
Non-Methyl HT-SELEX, 1 experiments	median	0.961	0.962	0.751	0.775	0.628	0.663
Non-Methyl HT-SELEX, 1 experiments	best	0.961	0.962	0.751	0.775	0.628	0.663

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	Nuclear receptors with C4 zinc fingers {2.1} (TFClass)
TF family	GCNF (NR6) {2.1.6} (TFClass)
TF subfamily	{2.1.6.0} (TFClass)
TFClass ID	TFClass: 2.1.6.0.1
HGNC	HGNC:7985
MGI	MGI:1352459
EntrezGene (human)	GeneID:2649 (SSTAR profile)
EntrezGene (mouse)	GeneID:14536 (SSTAR profile)
UniProt ID (human)	NR6A1_HUMAN
UniProt ID (mouse)	NR6A1_MOUSE
UniProt AC (human)	Q15406 (TFClass)
UniProt AC (mouse)	Q64249 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 1 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

PCM	NR6A1.H12INVIVO.2.SM.B.pcm
PWM	NR6A1.H12INVIVO.2.SM.B.pwm
PFM	NR6A1.H12INVIVO.2.SM.B.pfm
Alignment	NR6A1.H12INVIVO.2.SM.B.words.tsv
Threshold to P-value map	NR6A1.H12INVIVO.2.SM.B.thr
Motif in other formats
JASPAR format	NR6A1.H12INVIVO.2.SM.B_jaspar_format.txt
MEME format	NR6A1.H12INVIVO.2.SM.B_meme_format.meme
Transfac format	NR6A1.H12INVIVO.2.SM.B_transfac_format.txt
Homer format	NR6A1.H12INVIVO.2.SM.B_homer_format_0.001.txt NR6A1.H12INVIVO.2.SM.B_homer_format_0.0005.txt NR6A1.H12INVIVO.2.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3262.5	1934.5	2634.5	1670.5
02	1524.0	1460.0	4835.0	1683.0
03	1311.0	1227.0	4414.0	2550.0
04	737.0	1416.0	1059.0	6290.0
05	617.0	7287.0	1032.0	566.0
06	8931.0	66.0	379.0	126.0
07	9099.0	164.0	157.0	82.0
08	8.0	7.0	9425.0	62.0
09	34.0	7.0	4649.0	4812.0
10	3.0	80.0	26.0	9393.0
11	3.0	9395.0	41.0	63.0
12	9482.0	0.0	11.0	9.0
13	8930.0	280.0	69.0	223.0
14	118.0	134.0	9020.0	230.0
15	246.0	115.0	5322.0	3819.0
16	420.0	735.0	1441.0	6906.0
17	247.0	7372.0	556.0	1327.0
18	6424.75	535.75	1961.75	579.75
19	3015.5	2294.5	1754.5	2437.5

PFM

	A	C	G	T
01	0.343	0.204	0.277	0.176
02	0.16	0.154	0.509	0.177
03	0.138	0.129	0.465	0.268
04	0.078	0.149	0.111	0.662
05	0.065	0.767	0.109	0.06
06	0.94	0.007	0.04	0.013
07	0.958	0.017	0.017	0.009
08	0.001	0.001	0.992	0.007
09	0.004	0.001	0.489	0.506
10	0.0	0.008	0.003	0.989
11	0.0	0.989	0.004	0.007
12	0.998	0.0	0.001	0.001
13	0.94	0.029	0.007	0.023
14	0.012	0.014	0.949	0.024
15	0.026	0.012	0.56	0.402
16	0.044	0.077	0.152	0.727
17	0.026	0.776	0.059	0.14
18	0.676	0.056	0.206	0.061
19	0.317	0.241	0.185	0.257

PWM

	A	C	G	T
01	0.317	-0.205	0.103	-0.352
02	-0.443	-0.486	0.71	-0.344
03	-0.594	-0.66	0.619	0.071
04	-1.168	-0.517	-0.807	0.973
05	-1.345	1.12	-0.832	-1.431
06	1.324	-3.55	-1.83	-2.92
07	1.342	-2.66	-2.703	-3.34
08	-5.443	-5.545	1.377	-3.611
09	-4.182	-5.545	0.671	0.705
10	-6.108	-3.364	-4.431	1.374
11	-6.108	1.374	-4.006	-3.595
12	1.383	-6.945	-5.187	-5.35
13	1.324	-2.131	-3.507	-2.357
14	-2.984	-2.859	1.334	-2.326
15	-2.259	-3.009	0.806	0.474
16	-1.728	-1.171	-0.499	1.067
17	-2.255	1.132	-1.449	-0.582
18	0.994	-1.486	-0.191	-1.407
19	0.238	-0.035	-0.303	0.026

Standard thresholds

P-value	Threshold
0.001	-0.89369
0.0005	0.72051
0.0001	4.10616