NR6A1.H12INVITRO.1.P.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NR6A1.H12INVITRO.1.P.C
Gene (human)	NR6A1 (GeneCards)
Gene synonyms (human)	GCNF
Gene (mouse)	Nr6a1
Gene synonyms (mouse)	Gcnf
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	C

Motif length	12
Consensus	dbYCAAGKYCAn
GC content	47.59%
Information content (bits; total / per base)	10.611 / 0.884
Data sources	ChIP-Seq
Aligned words	985

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)	0.79	0.806	0.68	0.703	0.766	0.774	2.763	2.855	176.796	196.092

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.979	0.979	0.775	0.804	0.625	0.674
Overall, 2 experiments	best	0.999	0.999	0.815	0.842	0.641	0.696
Methyl HT-SELEX, 1 experiments	median	0.999	0.999	0.815	0.842	0.641	0.696
Methyl HT-SELEX, 1 experiments	best	0.999	0.999	0.815	0.842	0.641	0.696
Non-Methyl HT-SELEX, 1 experiments	median	0.959	0.959	0.736	0.766	0.608	0.652
Non-Methyl HT-SELEX, 1 experiments	best	0.959	0.959	0.736	0.766	0.608	0.652

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.1.P.C.pcm
PWM	NR6A1.H12INVITRO.1.P.C.pwm
PFM	NR6A1.H12INVITRO.1.P.C.pfm
Alignment	NR6A1.H12INVITRO.1.P.C.words.tsv
Threshold to P-value map	NR6A1.H12INVITRO.1.P.C.thr
Motif in other formats
JASPAR format	NR6A1.H12INVITRO.1.P.C_jaspar_format.txt
MEME format	NR6A1.H12INVITRO.1.P.C_meme_format.meme
Transfac format	NR6A1.H12INVITRO.1.P.C_transfac_format.txt
Homer format	NR6A1.H12INVITRO.1.P.C_homer_format_0.001.txt NR6A1.H12INVITRO.1.P.C_homer_format_0.0005.txt NR6A1.H12INVITRO.1.P.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	165.0	106.0	500.0	214.0
02	72.0	150.0	386.0	377.0
03	48.0	306.0	50.0	581.0
04	26.0	888.0	57.0	14.0
05	948.0	15.0	9.0	13.0
06	908.0	16.0	23.0	38.0
07	64.0	6.0	870.0	45.0
08	37.0	17.0	534.0	397.0
09	53.0	229.0	123.0	580.0
10	22.0	813.0	41.0	109.0
11	859.0	24.0	39.0	63.0
12	330.0	166.0	257.0	232.0

PFM

	A	C	G	T
01	0.168	0.108	0.508	0.217
02	0.073	0.152	0.392	0.383
03	0.049	0.311	0.051	0.59
04	0.026	0.902	0.058	0.014
05	0.962	0.015	0.009	0.013
06	0.922	0.016	0.023	0.039
07	0.065	0.006	0.883	0.046
08	0.038	0.017	0.542	0.403
09	0.054	0.232	0.125	0.589
10	0.022	0.825	0.042	0.111
11	0.872	0.024	0.04	0.064
12	0.335	0.169	0.261	0.236

PWM

	A	C	G	T
01	-0.397	-0.834	0.705	-0.139
02	-1.213	-0.491	0.447	0.423
03	-1.607	0.216	-1.567	0.854
04	-2.191	1.278	-1.44	-2.758
05	1.343	-2.697	-3.141	-2.824
06	1.3	-2.638	-2.306	-1.831
07	-1.328	-3.469	1.257	-1.669
08	-1.857	-2.584	0.77	0.475
09	-1.511	-0.072	-0.687	0.853
10	-2.347	1.19	-1.759	-0.806
11	1.244	-2.266	-1.807	-1.343
12	0.291	-0.391	0.042	-0.059

Standard thresholds

P-value	Threshold
0.001	4.55516
0.0005	5.44397
0.0001	7.226315