NR6A1.H12INVITRO.2.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NR6A1.H12INVITRO.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	nddbSRRGKTCAAGKKYvn
GC content	48.6%
Information content (bits; total / per base)	13.147 / 0.692
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9799

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)	0.762	0.775	0.669	0.68	0.727	0.736	2.822	2.943	155.886	174.886

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.98	0.981	0.8	0.819	0.664	0.695
Overall, 2 experiments	best	1.0	1.0	0.842	0.858	0.69	0.722
Methyl HT-SELEX, 1 experiments	median	1.0	1.0	0.842	0.858	0.69	0.722
Methyl HT-SELEX, 1 experiments	best	1.0	1.0	0.842	0.858	0.69	0.722
Non-Methyl HT-SELEX, 1 experiments	median	0.961	0.962	0.759	0.779	0.639	0.669
Non-Methyl HT-SELEX, 1 experiments	best	0.961	0.962	0.759	0.779	0.639	0.669

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.H12INVITRO.2.SM.B.pcm
PWM	NR6A1.H12INVITRO.2.SM.B.pwm
PFM	NR6A1.H12INVITRO.2.SM.B.pfm
Alignment	NR6A1.H12INVITRO.2.SM.B.words.tsv
Threshold to P-value map	NR6A1.H12INVITRO.2.SM.B.thr
Motif in other formats
JASPAR format	NR6A1.H12INVITRO.2.SM.B_jaspar_format.txt
MEME format	NR6A1.H12INVITRO.2.SM.B_meme_format.meme
Transfac format	NR6A1.H12INVITRO.2.SM.B_transfac_format.txt
Homer format	NR6A1.H12INVITRO.2.SM.B_homer_format_0.001.txt NR6A1.H12INVITRO.2.SM.B_homer_format_0.0005.txt NR6A1.H12INVITRO.2.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2988.5	2050.5	2820.5	1939.5
02	1829.75	1574.75	4497.75	1896.75
03	1589.0	1484.0	4310.0	2416.0
04	1157.0	1667.0	1834.0	5141.0
05	1133.0	5937.0	1675.0	1054.0
06	7501.0	385.0	1306.0	607.0
07	7616.0	811.0	902.0	470.0
08	228.0	279.0	8908.0	384.0
09	246.0	214.0	5022.0	4317.0
10	151.0	255.0	643.0	8750.0
11	272.0	8639.0	563.0	325.0
12	9066.0	78.0	588.0	67.0
13	7939.0	731.0	431.0	698.0
14	375.0	383.0	8420.0	621.0
15	624.0	448.0	5147.0	3580.0
16	886.0	1026.0	1900.0	5987.0
17	859.0	6208.0	1171.0	1561.0
18	5280.75	1022.75	2484.75	1010.75
19	2715.25	2437.25	2224.25	2422.25

PFM

	A	C	G	T
01	0.305	0.209	0.288	0.198
02	0.187	0.161	0.459	0.194
03	0.162	0.151	0.44	0.247
04	0.118	0.17	0.187	0.525
05	0.116	0.606	0.171	0.108
06	0.765	0.039	0.133	0.062
07	0.777	0.083	0.092	0.048
08	0.023	0.028	0.909	0.039
09	0.025	0.022	0.513	0.441
10	0.015	0.026	0.066	0.893
11	0.028	0.882	0.057	0.033
12	0.925	0.008	0.06	0.007
13	0.81	0.075	0.044	0.071
14	0.038	0.039	0.859	0.063
15	0.064	0.046	0.525	0.365
16	0.09	0.105	0.194	0.611
17	0.088	0.634	0.12	0.159
18	0.539	0.104	0.254	0.103
19	0.277	0.249	0.227	0.247

PWM

	A	C	G	T
01	0.199	-0.178	0.141	-0.233
02	-0.291	-0.441	0.607	-0.256
03	-0.432	-0.501	0.565	-0.014
04	-0.749	-0.385	-0.289	0.741
05	-0.77	0.885	-0.38	-0.842
06	1.118	-1.845	-0.628	-1.392
07	1.134	-1.104	-0.998	-1.647
08	-2.365	-2.165	1.29	-1.848
09	-2.29	-2.428	0.717	0.566
10	-2.772	-2.254	-1.335	1.272
11	-2.19	1.26	-1.467	-2.014
12	1.308	-3.419	-1.424	-3.566
13	1.175	-1.207	-1.733	-1.253
14	-1.872	-1.851	1.234	-1.37
15	-1.365	-1.695	0.742	0.379
16	-1.015	-0.869	-0.254	0.893
17	-1.046	0.929	-0.737	-0.45
18	0.768	-0.872	0.014	-0.884
19	0.103	-0.005	-0.096	-0.011

Standard thresholds

P-value	Threshold
0.001	3.88856
0.0005	4.85026
0.0001	6.88226