HXA11.H12RSNP.1.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HXA11.H12RSNP.1.SM.D
Gene (human)	HOXA11 (GeneCards)
Gene synonyms (human)	HOX1I
Gene (mouse)	Hoxa11
Gene synonyms (mouse)	Hox-1.9, Hoxa-11
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	12
Consensus	nWTTTACGAYbh
GC content	36.77%
Information content (bits; total / per base)	13.702 / 1.142
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9577

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 (14)	0.779	0.827	0.666	0.722	0.697	0.752	2.049	2.139	24.959	61.319

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.938	0.922	0.826	0.81	0.701	0.706
Overall, 4 experiments	best	0.989	0.986	0.899	0.894	0.75	0.764
Methyl HT-SELEX, 1 experiments	median	0.973	0.965	0.865	0.855	0.73	0.738
Methyl HT-SELEX, 1 experiments	best	0.973	0.965	0.865	0.855	0.73	0.738
Non-Methyl HT-SELEX, 3 experiments	median	0.903	0.878	0.786	0.766	0.672	0.674
Non-Methyl HT-SELEX, 3 experiments	best	0.989	0.986	0.899	0.894	0.75	0.764

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	HOX-related {3.1.1} (TFClass)
TF subfamily	HOX9-13 {3.1.1.8} (TFClass)
TFClass ID	TFClass: 3.1.1.8.9
HGNC	HGNC:5101
MGI	MGI:96172
EntrezGene (human)	GeneID:3207 (SSTAR profile)
EntrezGene (mouse)	GeneID:15396 (SSTAR profile)
UniProt ID (human)	HXA11_HUMAN
UniProt ID (mouse)	HXA11_MOUSE
UniProt AC (human)	P31270 (TFClass)
UniProt AC (mouse)	P31311 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 2 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	HXA11.H12RSNP.1.SM.D.pcm
PWM	HXA11.H12RSNP.1.SM.D.pwm
PFM	HXA11.H12RSNP.1.SM.D.pfm
Alignment	HXA11.H12RSNP.1.SM.D.words.tsv
Threshold to P-value map	HXA11.H12RSNP.1.SM.D.thr
Motif in other formats
JASPAR format	HXA11.H12RSNP.1.SM.D_jaspar_format.txt
MEME format	HXA11.H12RSNP.1.SM.D_meme_format.meme
Transfac format	HXA11.H12RSNP.1.SM.D_transfac_format.txt
Homer format	HXA11.H12RSNP.1.SM.D_homer_format_0.001.txt HXA11.H12RSNP.1.SM.D_homer_format_0.0005.txt HXA11.H12RSNP.1.SM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3337.5	1665.5	2392.5	2181.5
02	1612.75	976.75	1118.75	5868.75
03	349.0	109.0	267.0	8852.0
04	67.0	41.0	25.0	9444.0
05	1396.0	12.0	5.0	8164.0
06	9575.0	1.0	0.0	1.0
07	1.0	8949.0	7.0	620.0
08	24.0	5.0	9490.0	58.0
09	9327.0	61.0	124.0	65.0
10	60.0	6533.0	962.0	2022.0
11	1331.0	4769.0	1636.0	1841.0
12	2262.0	1720.0	1387.0	4208.0

PFM

	A	C	G	T
01	0.348	0.174	0.25	0.228
02	0.168	0.102	0.117	0.613
03	0.036	0.011	0.028	0.924
04	0.007	0.004	0.003	0.986
05	0.146	0.001	0.001	0.852
06	1.0	0.0	0.0	0.0
07	0.0	0.934	0.001	0.065
08	0.003	0.001	0.991	0.006
09	0.974	0.006	0.013	0.007
10	0.006	0.682	0.1	0.211
11	0.139	0.498	0.171	0.192
12	0.236	0.18	0.145	0.439

PWM

	A	C	G	T
01	0.332	-0.363	-0.001	-0.093
02	-0.395	-0.895	-0.76	0.896
03	-1.92	-3.07	-2.186	1.307
04	-3.543	-4.014	-4.475	1.372
05	-0.539	-5.122	-5.795	1.226
06	1.385	-6.59	-6.952	-6.59
07	-6.59	1.318	-5.553	-1.348
08	-4.513	-5.795	1.376	-3.683
09	1.359	-3.634	-2.943	-3.573
10	-3.65	1.003	-0.91	-0.169
11	-0.586	0.689	-0.38	-0.262
12	-0.057	-0.33	-0.545	0.564

Standard thresholds

P-value	Threshold
0.001	2.73751
0.0005	4.10713
0.0001	6.877475