HXA13.H12INVITRO.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HXA13.H12INVITRO.0.P.B
Gene (human)	HOXA13 (GeneCards)
Gene synonyms (human)	HOX1J
Gene (mouse)	Hoxa13
Gene synonyms (mouse)	Hox-1.10
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	10
Consensus	dTTTTATKRG
GC content	25.38%
Information content (bits; total / per base)	13.642 / 1.364
Data sources	ChIP-Seq
Aligned words	1027

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	4 (27)	0.933	0.97	0.884	0.929	0.898	0.942	3.323	3.654	152.886	393.092

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.982	0.953	0.974	0.955	0.946	0.926
Overall, 5 experiments	best	0.984	0.964	0.988	0.972	0.972	0.957
Methyl HT-SELEX, 2 experiments	median	0.981	0.952	0.973	0.95	0.918	0.9
Methyl HT-SELEX, 2 experiments	best	0.983	0.953	0.981	0.96	0.946	0.927
Non-Methyl HT-SELEX, 3 experiments	median	0.982	0.963	0.974	0.955	0.947	0.926
Non-Methyl HT-SELEX, 3 experiments	best	0.984	0.964	0.988	0.972	0.972	0.957

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: 3.1.1.8.14
HGNC	HGNC:5102
MGI	MGI:96173
EntrezGene (human)	GeneID:3209 (SSTAR profile)
EntrezGene (mouse)	GeneID:15398 (SSTAR profile)
UniProt ID (human)	HXA13_HUMAN
UniProt ID (mouse)	HXA13_MOUSE
UniProt AC (human)	P31271 (TFClass)
UniProt AC (mouse)	Q62424 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 4 mouse
HT-SELEX	3
Methyl-HT-SELEX	2

PCM	HXA13.H12INVITRO.0.P.B.pcm
PWM	HXA13.H12INVITRO.0.P.B.pwm
PFM	HXA13.H12INVITRO.0.P.B.pfm
Alignment	HXA13.H12INVITRO.0.P.B.words.tsv
Threshold to P-value map	HXA13.H12INVITRO.0.P.B.thr
Motif in other formats
JASPAR format	HXA13.H12INVITRO.0.P.B_jaspar_format.txt
MEME format	HXA13.H12INVITRO.0.P.B_meme_format.meme
Transfac format	HXA13.H12INVITRO.0.P.B_transfac_format.txt
Homer format	HXA13.H12INVITRO.0.P.B_homer_format_0.001.txt HXA13.H12INVITRO.0.P.B_homer_format_0.0005.txt HXA13.H12INVITRO.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	348.0	63.0	222.0	394.0
02	32.0	16.0	33.0	946.0
03	0.0	3.0	2.0	1022.0
04	1.0	1.0	2.0	1023.0
05	39.0	7.0	1.0	980.0
06	1018.0	1.0	4.0	4.0
07	3.0	285.0	1.0	738.0
08	33.0	3.0	517.0	474.0
09	594.0	1.0	426.0	6.0
10	3.0	76.0	943.0	5.0

PFM

	A	C	G	T
01	0.339	0.061	0.216	0.384
02	0.031	0.016	0.032	0.921
03	0.0	0.003	0.002	0.995
04	0.001	0.001	0.002	0.996
05	0.038	0.007	0.001	0.954
06	0.991	0.001	0.004	0.004
07	0.003	0.278	0.001	0.719
08	0.032	0.003	0.503	0.462
09	0.578	0.001	0.415	0.006
10	0.003	0.074	0.918	0.005

PWM

	A	C	G	T
01	0.302	-1.385	-0.144	0.426
02	-2.036	-2.679	-2.007	1.299
03	-5.005	-4.0	-4.237	1.376
04	-4.549	-4.549	-4.237	1.377
05	-1.848	-3.388	-4.549	1.334
06	1.372	-4.549	-3.808	-3.808
07	-4.0	0.104	-4.549	1.051
08	-2.007	-4.0	0.697	0.61
09	0.835	-4.549	0.504	-3.509
10	-4.0	-1.202	1.296	-3.648

Standard thresholds

P-value	Threshold
0.001	2.79263
0.0005	4.39223
0.0001	6.82154