HME2.H12INVITRO.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HME2.H12INVITRO.0.SM.B
Gene (human)	EN2 (GeneCards)
Gene synonyms (human)
Gene (mouse)	En2
Gene synonyms (mouse)	En-2
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	10
Consensus	nbRATTAvbn
GC content	35.46%
Information content (bits; total / per base)	8.292 / 0.829
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9153

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.828	0.79	0.716	0.692	0.632	0.627
Overall, 8 experiments	best	0.991	0.986	0.98	0.971	0.952	0.936
Methyl HT-SELEX, 2 experiments	median	0.91	0.884	0.852	0.833	0.792	0.781
Methyl HT-SELEX, 2 experiments	best	0.991	0.986	0.98	0.971	0.95	0.935
Non-Methyl HT-SELEX, 6 experiments	median	0.825	0.79	0.706	0.688	0.629	0.624
Non-Methyl HT-SELEX, 6 experiments	best	0.99	0.984	0.98	0.969	0.952	0.936

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	NK-related {3.1.2} (TFClass)
TF subfamily	EN {3.1.2.7} (TFClass)
TFClass ID	TFClass: 3.1.2.7.2
HGNC	HGNC:3343
MGI	MGI:95390
EntrezGene (human)	GeneID:2020 (SSTAR profile)
EntrezGene (mouse)	GeneID:13799 (SSTAR profile)
UniProt ID (human)	HME2_HUMAN
UniProt ID (mouse)	HME2_MOUSE
UniProt AC (human)	P19622 (TFClass)
UniProt AC (mouse)	P09066 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	6
Methyl-HT-SELEX	2

PCM	HME2.H12INVITRO.0.SM.B.pcm
PWM	HME2.H12INVITRO.0.SM.B.pwm
PFM	HME2.H12INVITRO.0.SM.B.pfm
Alignment	HME2.H12INVITRO.0.SM.B.words.tsv
Threshold to P-value map	HME2.H12INVITRO.0.SM.B.thr
Motif in other formats
JASPAR format	HME2.H12INVITRO.0.SM.B_jaspar_format.txt
MEME format	HME2.H12INVITRO.0.SM.B_meme_format.meme
Transfac format	HME2.H12INVITRO.0.SM.B_transfac_format.txt
Homer format	HME2.H12INVITRO.0.SM.B_homer_format_0.001.txt HME2.H12INVITRO.0.SM.B_homer_format_0.0005.txt HME2.H12INVITRO.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2189.75	2668.75	2118.75	2175.75
02	627.75	4276.75	790.75	3457.75
03	6380.0	1258.0	1287.0	228.0
04	8931.0	142.0	80.0	0.0
05	0.0	9.0	1.0	9143.0
06	0.0	689.0	0.0	8464.0
07	8162.0	364.0	578.0	49.0
08	1658.0	2550.0	4305.0	640.0
09	996.75	3018.75	3140.75	1996.75
10	2154.5	2241.5	2939.5	1817.5

PFM

	A	C	G	T
01	0.239	0.292	0.231	0.238
02	0.069	0.467	0.086	0.378
03	0.697	0.137	0.141	0.025
04	0.976	0.016	0.009	0.0
05	0.0	0.001	0.0	0.999
06	0.0	0.075	0.0	0.925
07	0.892	0.04	0.063	0.005
08	0.181	0.279	0.47	0.07
09	0.109	0.33	0.343	0.218
10	0.235	0.245	0.321	0.199

PWM

	A	C	G	T
01	-0.044	0.154	-0.077	-0.05
02	-1.291	0.625	-1.061	0.412
03	1.025	-0.597	-0.575	-2.297
04	1.361	-2.765	-3.326	-6.912
05	-6.912	-5.313	-6.549	1.384
06	-6.912	-1.198	-6.912	1.307
07	1.271	-1.833	-1.373	-3.799
08	-0.322	0.108	0.632	-1.272
09	-0.83	0.277	0.316	-0.136
10	-0.06	-0.021	0.25	-0.23

Standard thresholds

P-value	Threshold
0.001	5.322615
0.0005	5.978135
0.0001	7.332785