HXA1.H12INVIVO.1.S.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HXA1.H12INVIVO.1.S.D
Gene (human)	HOXA1 (GeneCards)
Gene synonyms (human)	HOX1F
Gene (mouse)	Hoxa1
Gene synonyms (mouse)	Era-1, Hox-1.6, Hoxa-1
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	17
Consensus	hWWWdhvvbTAATTAvn
GC content	25.16%
Information content (bits; total / per base)	14.836 / 0.873
Data sources	HT-SELEX
Aligned words	1696

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.935	0.908	0.86	0.836	0.76	0.753
Overall, 4 experiments	best	0.969	0.95	0.952	0.926	0.922	0.891
Methyl HT-SELEX, 1 experiments	median	0.964	0.942	0.94	0.911	0.865	0.842
Methyl HT-SELEX, 1 experiments	best	0.964	0.942	0.94	0.911	0.865	0.842
Non-Methyl HT-SELEX, 3 experiments	median	0.906	0.873	0.779	0.761	0.654	0.665
Non-Methyl HT-SELEX, 3 experiments	best	0.969	0.95	0.952	0.926	0.922	0.891

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	HOX1 {3.1.1.1} (TFClass)
TFClass ID	TFClass: 3.1.1.1.1
HGNC	HGNC:5099
MGI	MGI:96170
EntrezGene (human)	GeneID:3198 (SSTAR profile)
EntrezGene (mouse)
UniProt ID (human)	HXA1_HUMAN
UniProt ID (mouse)	HXA1_MOUSE
UniProt AC (human)	P49639 (TFClass)
UniProt AC (mouse)	P09022 (TFClass)
GRECO-DB-TF	yes

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

PCM	HXA1.H12INVIVO.1.S.D.pcm
PWM	HXA1.H12INVIVO.1.S.D.pwm
PFM	HXA1.H12INVIVO.1.S.D.pfm
Alignment	HXA1.H12INVIVO.1.S.D.words.tsv
Threshold to P-value map	HXA1.H12INVIVO.1.S.D.thr
Motif in other formats
JASPAR format	HXA1.H12INVIVO.1.S.D_jaspar_format.txt
MEME format	HXA1.H12INVIVO.1.S.D_meme_format.meme
Transfac format	HXA1.H12INVIVO.1.S.D_transfac_format.txt
Homer format	HXA1.H12INVIVO.1.S.D_homer_format_0.001.txt HXA1.H12INVIVO.1.S.D_homer_format_0.0005.txt HXA1.H12INVIVO.1.S.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	665.5	229.5	187.5	613.5
02	436.25	120.25	76.25	1063.25
03	795.0	68.0	144.0	689.0
04	1064.0	82.0	158.0	392.0
05	487.0	135.0	172.0	902.0
06	331.0	358.0	313.0	694.0
07	793.0	334.0	329.0	240.0
08	363.0	598.0	652.0	83.0
09	42.0	728.0	408.0	518.0
10	0.0	2.0	0.0	1694.0
11	1693.0	0.0	3.0	0.0
12	1696.0	0.0	0.0	0.0
13	0.0	0.0	0.0	1696.0
14	0.0	29.0	6.0	1661.0
15	1608.0	0.0	88.0	0.0
16	432.75	639.75	556.75	66.75
17	396.25	530.25	306.25	463.25

PFM

	A	C	G	T
01	0.392	0.135	0.111	0.362
02	0.257	0.071	0.045	0.627
03	0.469	0.04	0.085	0.406
04	0.627	0.048	0.093	0.231
05	0.287	0.08	0.101	0.532
06	0.195	0.211	0.185	0.409
07	0.468	0.197	0.194	0.142
08	0.214	0.353	0.384	0.049
09	0.025	0.429	0.241	0.305
10	0.0	0.001	0.0	0.999
11	0.998	0.0	0.002	0.0
12	1.0	0.0	0.0	0.0
13	0.0	0.0	0.0	1.0
14	0.0	0.017	0.004	0.979
15	0.948	0.0	0.052	0.0
16	0.255	0.377	0.328	0.039
17	0.234	0.313	0.181	0.273

PWM

	A	C	G	T
01	0.449	-0.61	-0.81	0.368
02	0.028	-1.249	-1.696	0.917
03	0.627	-1.808	-1.071	0.484
04	0.917	-1.625	-0.98	-0.078
05	0.138	-1.135	-0.896	0.753
06	-0.246	-0.168	-0.302	0.491
07	0.624	-0.237	-0.252	-0.566
08	-0.155	0.343	0.429	-1.613
09	-2.273	0.539	-0.038	0.199
10	-5.434	-4.704	-5.434	1.382
11	1.381	-5.434	-4.473	-5.434
12	1.383	-5.434	-5.434	-5.434
13	-5.434	-5.434	-5.434	1.383
14	-5.434	-2.625	-3.992	1.362
15	1.33	-5.434	-1.556	-5.434
16	0.02	0.41	0.271	-1.826
17	-0.067	0.223	-0.324	0.088

Standard thresholds

P-value	Threshold
0.001	1.84371
0.0005	3.29191
0.0001	6.54726