NR1D2.H12INVIVO.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NR1D2.H12INVIVO.0.P.B
Gene (human)	NR1D2 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Nr1d2
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	18
Consensus	ddMWvTRRGKCAbnvddn
GC content	50.29%
Information content (bits; total / per base)	11.061 / 0.614
Data sources	ChIP-Seq
Aligned words	1000

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	2 (12)	0.78	0.816	0.687	0.728	0.792	0.829	2.978	3.364	117.101	154.469

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.992	0.988	0.924	0.918	0.77	0.786
Overall, 2 experiments	best	0.992	0.988	0.946	0.937	0.796	0.808
Methyl HT-SELEX, 1 experiments	median	0.992	0.988	0.902	0.899	0.743	0.763
Methyl HT-SELEX, 1 experiments	best	0.992	0.988	0.902	0.899	0.743	0.763
Non-Methyl HT-SELEX, 1 experiments	median	0.991	0.987	0.946	0.937	0.796	0.808
Non-Methyl HT-SELEX, 1 experiments	best	0.991	0.987	0.946	0.937	0.796	0.808

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	Nuclear receptors with C4 zinc fingers {2.1} (TFClass)
TF family	Thyroid hormone receptor-related {2.1.2} (TFClass)
TF subfamily	REVERBA (NR1D) {2.1.2.3} (TFClass)
TFClass ID	TFClass: 2.1.2.3.2
HGNC	HGNC:7963
MGI	MGI:2449205
EntrezGene (human)	GeneID:9975 (SSTAR profile)
EntrezGene (mouse)	GeneID:353187 (SSTAR profile)
UniProt ID (human)	NR1D2_HUMAN
UniProt ID (mouse)	NR1D2_MOUSE
UniProt AC (human)	Q14995 (TFClass)
UniProt AC (mouse)	Q60674 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 2 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

PCM	NR1D2.H12INVIVO.0.P.B.pcm
PWM	NR1D2.H12INVIVO.0.P.B.pwm
PFM	NR1D2.H12INVIVO.0.P.B.pfm
Alignment	NR1D2.H12INVIVO.0.P.B.words.tsv
Threshold to P-value map	NR1D2.H12INVIVO.0.P.B.thr
Motif in other formats
JASPAR format	NR1D2.H12INVIVO.0.P.B_jaspar_format.txt
MEME format	NR1D2.H12INVIVO.0.P.B_meme_format.meme
Transfac format	NR1D2.H12INVIVO.0.P.B_transfac_format.txt
Homer format	NR1D2.H12INVIVO.0.P.B_homer_format_0.001.txt NR1D2.H12INVIVO.0.P.B_homer_format_0.0005.txt NR1D2.H12INVIVO.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	272.0	91.0	523.0	114.0
02	302.0	63.0	386.0	249.0
03	607.0	222.0	100.0	71.0
04	602.0	18.0	67.0	313.0
05	106.0	293.0	533.0	68.0
06	31.0	28.0	84.0	857.0
07	392.0	3.0	589.0	16.0
08	262.0	4.0	672.0	62.0
09	28.0	28.0	929.0	15.0
10	59.0	53.0	115.0	773.0
11	29.0	888.0	54.0	29.0
12	977.0	9.0	3.0	11.0
13	135.0	293.0	399.0	173.0
14	308.0	166.0	216.0	310.0
15	290.0	173.0	412.0	125.0
16	232.0	154.0	407.0	207.0
17	245.0	164.0	407.0	184.0
18	232.0	213.0	293.0	262.0

PFM

	A	C	G	T
01	0.272	0.091	0.523	0.114
02	0.302	0.063	0.386	0.249
03	0.607	0.222	0.1	0.071
04	0.602	0.018	0.067	0.313
05	0.106	0.293	0.533	0.068
06	0.031	0.028	0.084	0.857
07	0.392	0.003	0.589	0.016
08	0.262	0.004	0.672	0.062
09	0.028	0.028	0.929	0.015
10	0.059	0.053	0.115	0.773
11	0.029	0.888	0.054	0.029
12	0.977	0.009	0.003	0.011
13	0.135	0.293	0.399	0.173
14	0.308	0.166	0.216	0.31
15	0.29	0.173	0.412	0.125
16	0.232	0.154	0.407	0.207
17	0.245	0.164	0.407	0.184
18	0.232	0.213	0.293	0.262

PWM

	A	C	G	T
01	0.084	-0.999	0.735	-0.777
02	0.188	-1.358	0.432	-0.004
03	0.883	-0.118	-0.906	-1.242
04	0.875	-2.546	-1.298	0.223
05	-0.849	0.158	0.753	-1.284
06	-2.04	-2.136	-1.077	1.227
07	0.447	-3.975	0.853	-2.653
08	0.047	-3.783	0.984	-1.374
09	-2.136	-2.136	1.308	-2.711
10	-1.422	-1.526	-0.769	1.124
11	-2.103	1.263	-1.508	-2.103
12	1.358	-3.156	-3.975	-2.985
13	-0.61	0.158	0.465	-0.365
14	0.207	-0.406	-0.145	0.214
15	0.147	-0.365	0.497	-0.686
16	-0.074	-0.48	0.485	-0.187
17	-0.02	-0.418	0.485	-0.304
18	-0.074	-0.159	0.158	0.047

Standard thresholds

P-value	Threshold
0.001	4.47876
0.0005	5.37446
0.0001	7.21511