GMEB2.H14RSNP.2.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GMEB2.H14RSNP.2.SM.D
Gene (human)	GMEB2 (GeneCards)
Gene synonyms (human)	KIAA1269
Gene (mouse)	Gmeb2
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	D

Motif length	15
Consensus	nvvKKACGTvAbSbn
GC content	53.41%
Information content (bits; total / per base)	12.006 / 0.8
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	7068
Previous names	GMEB2.H12RSNP.2.SM.D

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	1 (7)	0.81	0.816	0.665	0.669	0.684	0.698	1.782	1.84	64.051	75.658

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.908	0.868	0.846	0.803	0.738	0.719
Overall, 5 experiments	best	0.995	0.991	0.989	0.984	0.978	0.968
Methyl HT-SELEX, 1 experiments	median	0.991	0.985	0.981	0.972	0.963	0.948
Methyl HT-SELEX, 1 experiments	best	0.991	0.985	0.981	0.972	0.963	0.948
Non-Methyl HT-SELEX, 4 experiments	median	0.82	0.774	0.753	0.714	0.669	0.652
Non-Methyl HT-SELEX, 4 experiments	best	0.995	0.991	0.989	0.984	0.978	0.968

TF superclass	alpha-Helices exposed by beta-structures {5} (TFClass)
TF class	SAND domain factors {5.3} (TFClass)
TF family	GMEB {5.3.3} (TFClass)
TF subfamily	GMEB {5.3.3.1} (TFClass)
TFClass ID	TFClass: 5.3.3.1.2
HGNC	HGNC:4371
MGI	MGI:2652836
EntrezGene (human)	GeneID:26205 (SSTAR profile)
EntrezGene (mouse)	GeneID:229004 (SSTAR profile)
UniProt ID (human)	GMEB2_HUMAN
UniProt ID (mouse)	GMEB2_MOUSE
UniProt AC (human)	Q9UKD1 (TFClass)
UniProt AC (mouse)	P58929 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 0 mouse
HT-SELEX	4
Methyl-HT-SELEX	1
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	GMEB2.H14RSNP.2.SM.D.pcm
PWM	GMEB2.H14RSNP.2.SM.D.pwm
PFM	GMEB2.H14RSNP.2.SM.D.pfm
Threshold to P-value map	GMEB2.H14RSNP.2.SM.D.thr
Motif in other formats
JASPAR format	GMEB2.H14RSNP.2.SM.D_jaspar_format.txt
MEME format	GMEB2.H14RSNP.2.SM.D_meme_format.meme
Transfac format	GMEB2.H14RSNP.2.SM.D_transfac_format.txt
Homer format	GMEB2.H14RSNP.2.SM.D_homer_format_0.001.txt GMEB2.H14RSNP.2.SM.D_homer_format_0.0005.txt GMEB2.H14RSNP.2.SM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1781.0	1254.0	2215.0	1818.0
02	2437.0	980.0	2773.0	878.0
03	1065.0	2989.0	2175.0	839.0
04	291.0	408.0	3959.0	2410.0
05	343.0	429.0	2004.0	4292.0
06	6156.0	0.0	912.0	0.0
07	0.0	7056.0	12.0	0.0
08	0.0	0.0	7068.0	0.0
09	0.0	84.0	5.0	6979.0
10	4060.0	908.0	1528.0	572.0
11	5798.0	23.0	1206.0	41.0
12	419.0	3341.0	2554.0	754.0
13	572.0	604.0	5636.0	256.0
14	974.75	1621.75	1489.75	2981.75
15	2106.75	1292.75	2093.75	1574.75

PFM

	A	C	G	T
01	0.252	0.177	0.313	0.257
02	0.345	0.139	0.392	0.124
03	0.151	0.423	0.308	0.119
04	0.041	0.058	0.56	0.341
05	0.049	0.061	0.284	0.607
06	0.871	0.0	0.129	0.0
07	0.0	0.998	0.002	0.0
08	0.0	0.0	1.0	0.0
09	0.0	0.012	0.001	0.987
10	0.574	0.128	0.216	0.081
11	0.82	0.003	0.171	0.006
12	0.059	0.473	0.361	0.107
13	0.081	0.085	0.797	0.036
14	0.138	0.229	0.211	0.422
15	0.298	0.183	0.296	0.223

PWM

	A	C	G	T
01	0.008	-0.342	0.226	0.028
02	0.321	-0.588	0.45	-0.698
03	-0.505	0.525	0.208	-0.743
04	-1.797	-1.462	0.806	0.31
05	-1.634	-1.412	0.126	0.887
06	1.247	-6.683	-0.66	-6.683
07	-6.683	1.384	-4.824	-6.683
08	-6.683	-6.683	1.385	-6.683
09	-6.683	-3.021	-5.502	1.373
10	0.831	-0.665	-0.145	-1.125
11	1.187	-4.251	-0.381	-3.712
12	-1.435	0.636	0.368	-0.85
13	-1.125	-1.071	1.159	-1.924
14	-0.594	-0.086	-0.17	0.523
15	0.176	-0.312	0.169	-0.115

Standard thresholds

P-value	Threshold
0.001	4.02681
0.0005	5.23556
0.0001	7.39661