HXA11.H14INVITRO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HXA11.H14INVITRO.0.PS.A
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	0
Quality	A

Motif length	10
Consensus	dTTWAYGRbn
GC content	34.53%
Information content (bits; total / per base)	10.066 / 1.007
Data sources	ChIP-Seq + HT-SELEX
Aligned words	8452
Previous names	HXA11.H12INVITRO.0.PS.A

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)	0.777	0.811	0.679	0.716	0.722	0.774	2.251	2.443	28.538	67.658

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.938	0.909	0.84	0.815	0.719	0.715
Overall, 4 experiments	best	0.979	0.967	0.901	0.889	0.756	0.765
Methyl HT-SELEX, 1 experiments	median	0.956	0.934	0.861	0.84	0.735	0.734
Methyl HT-SELEX, 1 experiments	best	0.956	0.934	0.861	0.84	0.735	0.734
Non-Methyl HT-SELEX, 3 experiments	median	0.919	0.884	0.818	0.789	0.703	0.697
Non-Methyl HT-SELEX, 3 experiments	best	0.979	0.967	0.901	0.889	0.756	0.765

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
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	HXA11.H14INVITRO.0.PS.A.pcm
PWM	HXA11.H14INVITRO.0.PS.A.pwm
PFM	HXA11.H14INVITRO.0.PS.A.pfm
Threshold to P-value map	HXA11.H14INVITRO.0.PS.A.thr
Motif in other formats
JASPAR format	HXA11.H14INVITRO.0.PS.A_jaspar_format.txt
MEME format	HXA11.H14INVITRO.0.PS.A_meme_format.meme
Transfac format	HXA11.H14INVITRO.0.PS.A_transfac_format.txt
Homer format	HXA11.H14INVITRO.0.PS.A_homer_format_0.001.txt HXA11.H14INVITRO.0.PS.A_homer_format_0.0005.txt HXA11.H14INVITRO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1518.75	1299.75	1703.75	3929.75
02	607.25	196.25	621.25	7027.25
03	196.0	23.0	36.0	8197.0
04	3276.0	22.0	47.0	5107.0
05	8448.0	1.0	3.0	0.0
06	29.0	3681.0	0.0	4742.0
07	0.0	22.0	8422.0	8.0
08	6106.0	227.0	1562.0	557.0
09	371.5	3498.5	2672.5	1909.5
10	1542.25	2960.25	2189.25	1760.25

PFM

	A	C	G	T
01	0.18	0.154	0.202	0.465
02	0.072	0.023	0.074	0.831
03	0.023	0.003	0.004	0.97
04	0.388	0.003	0.006	0.604
05	1.0	0.0	0.0	0.0
06	0.003	0.436	0.0	0.561
07	0.0	0.003	0.996	0.001
08	0.722	0.027	0.185	0.066
09	0.044	0.414	0.316	0.226
10	0.182	0.35	0.259	0.208

PWM

	A	C	G	T
01	-0.33	-0.485	-0.215	0.62
02	-1.244	-2.366	-1.222	1.201
03	-2.367	-4.428	-4.013	1.355
04	0.438	-4.468	-3.76	0.882
05	1.385	-6.475	-5.997	-6.841
06	-4.215	0.555	-6.841	0.808
07	-6.841	-4.468	1.382	-5.329
08	1.06	-2.222	-0.302	-1.33
09	-1.733	0.504	0.235	-0.101
10	-0.314	0.337	0.035	-0.182

Standard thresholds

P-value	Threshold
0.001	4.89777
0.0005	5.81925
0.0001	7.71506