HXD10.H12INVITRO.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HXD10.H12INVITRO.0.SM.B
Gene (human)	HOXD10 (GeneCards)
Gene synonyms (human)	HOX4D, HOX4E
Gene (mouse)	Hoxd10
Gene synonyms (mouse)	Hox-4.5, Hoxd-10
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	12
Consensus	ndTTTACGAYbn
GC content	38.13%
Information content (bits; total / per base)	11.386 / 0.949
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	8067

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.909	0.893	0.838	0.827	0.775	0.77
Overall, 4 experiments	best	0.997	0.994	0.989	0.984	0.946	0.936
Methyl HT-SELEX, 2 experiments	median	0.851	0.848	0.8	0.799	0.755	0.753
Methyl HT-SELEX, 2 experiments	best	0.997	0.994	0.989	0.984	0.946	0.936
Non-Methyl HT-SELEX, 2 experiments	median	0.909	0.893	0.838	0.827	0.775	0.77
Non-Methyl HT-SELEX, 2 experiments	best	0.986	0.975	0.975	0.962	0.938	0.919

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: 3.1.1.8.8
HGNC	HGNC:5133
MGI	MGI:96202
EntrezGene (human)	GeneID:3236 (SSTAR profile)
EntrezGene (mouse)	GeneID:15430 (SSTAR profile)
UniProt ID (human)	HXD10_HUMAN
UniProt ID (mouse)	HXD10_MOUSE
UniProt AC (human)	P28358 (TFClass)
UniProt AC (mouse)	P28359 (TFClass)
GRECO-DB-TF	yes

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

PCM	HXD10.H12INVITRO.0.SM.B.pcm
PWM	HXD10.H12INVITRO.0.SM.B.pwm
PFM	HXD10.H12INVITRO.0.SM.B.pfm
Alignment	HXD10.H12INVITRO.0.SM.B.words.tsv
Threshold to P-value map	HXD10.H12INVITRO.0.SM.B.thr
Motif in other formats
JASPAR format	HXD10.H12INVITRO.0.SM.B_jaspar_format.txt
MEME format	HXD10.H12INVITRO.0.SM.B_meme_format.meme
Transfac format	HXD10.H12INVITRO.0.SM.B_transfac_format.txt
Homer format	HXD10.H12INVITRO.0.SM.B_homer_format_0.001.txt HXD10.H12INVITRO.0.SM.B_homer_format_0.0005.txt HXD10.H12INVITRO.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1848.25	2434.25	2294.25	1490.25
02	1910.5	1078.5	1770.5	3307.5
03	322.0	82.0	326.0	7337.0
04	19.0	5.0	4.0	8039.0
05	2599.0	3.0	2.0	5463.0
06	8067.0	0.0	0.0	0.0
07	1.0	5247.0	2.0	2817.0
08	1.0	15.0	7437.0	614.0
09	7064.0	70.0	831.0	102.0
10	81.0	4571.0	1167.0	2248.0
11	1145.25	3795.25	1954.25	1172.25
12	1725.5	2049.5	1772.5	2519.5

PFM

	A	C	G	T
01	0.229	0.302	0.284	0.185
02	0.237	0.134	0.219	0.41
03	0.04	0.01	0.04	0.91
04	0.002	0.001	0.0	0.997
05	0.322	0.0	0.0	0.677
06	1.0	0.0	0.0	0.0
07	0.0	0.65	0.0	0.349
08	0.0	0.002	0.922	0.076
09	0.876	0.009	0.103	0.013
10	0.01	0.567	0.145	0.279
11	0.142	0.47	0.242	0.145
12	0.214	0.254	0.22	0.312

PWM

	A	C	G	T
01	-0.087	0.188	0.129	-0.302
02	-0.054	-0.625	-0.13	0.494
03	-1.829	-3.177	-1.817	1.291
04	-4.554	-5.63	-5.778	1.382
05	0.253	-5.952	-6.164	0.996
06	1.385	-6.8	-6.8	-6.8
07	-6.432	0.955	-6.164	0.334
08	-6.432	-4.763	1.304	-1.187
09	1.253	-3.33	-0.885	-2.964
10	-3.189	0.818	-0.546	0.108
11	-0.565	0.632	-0.031	-0.542
12	-0.156	0.016	-0.129	0.222

Standard thresholds

P-value	Threshold
0.001	4.13546
0.0005	5.338525
0.0001	7.71787