HXA6.H12INVITRO.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HXA6.H12INVITRO.0.SM.B
Gene (human)	HOXA6 (GeneCards)
Gene synonyms (human)	HOX1B
Gene (mouse)	Hoxa6
Gene synonyms (mouse)	Hox-1.2, Hoxa-6
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	12
Consensus	nvbTAATKRbnn
GC content	35.8%
Information content (bits; total / per base)	10.302 / 0.859
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9530

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.896	0.842	0.853	0.799	0.788	0.745
Overall, 2 experiments	best	0.91	0.859	0.881	0.826	0.832	0.781
Methyl HT-SELEX, 1 experiments	median	0.882	0.825	0.826	0.773	0.744	0.709
Methyl HT-SELEX, 1 experiments	best	0.882	0.825	0.826	0.773	0.744	0.709
Non-Methyl HT-SELEX, 1 experiments	median	0.91	0.859	0.881	0.826	0.832	0.781
Non-Methyl HT-SELEX, 1 experiments	best	0.91	0.859	0.881	0.826	0.832	0.781

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	HOX6-7 {3.1.1.6} (TFClass)
TFClass ID	TFClass: 3.1.1.6.1
HGNC	HGNC:5107
MGI	MGI:96178
EntrezGene (human)	GeneID:3203 (SSTAR profile)
EntrezGene (mouse)	GeneID:15403 (SSTAR profile)
UniProt ID (human)	HXA6_HUMAN
UniProt ID (mouse)	HXA6_MOUSE
UniProt AC (human)	P31267 (TFClass)
UniProt AC (mouse)	P09092 (TFClass)
GRECO-DB-TF	yes

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

PCM	HXA6.H12INVITRO.0.SM.B.pcm
PWM	HXA6.H12INVITRO.0.SM.B.pwm
PFM	HXA6.H12INVITRO.0.SM.B.pfm
Alignment	HXA6.H12INVITRO.0.SM.B.words.tsv
Threshold to P-value map	HXA6.H12INVITRO.0.SM.B.thr
Motif in other formats
JASPAR format	HXA6.H12INVITRO.0.SM.B_jaspar_format.txt
MEME format	HXA6.H12INVITRO.0.SM.B_meme_format.meme
Transfac format	HXA6.H12INVITRO.0.SM.B_transfac_format.txt
Homer format	HXA6.H12INVITRO.0.SM.B_homer_format_0.001.txt HXA6.H12INVITRO.0.SM.B_homer_format_0.0005.txt HXA6.H12INVITRO.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2282.0	3019.0	2098.0	2131.0
02	3166.5	2267.5	2974.5	1121.5
03	1029.0	1817.0	1506.0	5178.0
04	6.0	8.0	0.0	9516.0
05	9530.0	0.0	0.0	0.0
06	9530.0	0.0	0.0	0.0
07	0.0	166.0	0.0	9364.0
08	75.0	152.0	4758.0	4545.0
09	4910.0	81.0	4249.0	290.0
10	696.0	5144.0	2293.0	1397.0
11	1528.0	3637.0	2083.0	2282.0
12	2403.5	2679.5	2010.5	2436.5

PFM

	A	C	G	T
01	0.239	0.317	0.22	0.224
02	0.332	0.238	0.312	0.118
03	0.108	0.191	0.158	0.543
04	0.001	0.001	0.0	0.999
05	1.0	0.0	0.0	0.0
06	1.0	0.0	0.0	0.0
07	0.0	0.017	0.0	0.983
08	0.008	0.016	0.499	0.477
09	0.515	0.008	0.446	0.03
10	0.073	0.54	0.241	0.147
11	0.16	0.382	0.219	0.239
12	0.252	0.281	0.211	0.256

PWM

	A	C	G	T
01	-0.043	0.237	-0.127	-0.111
02	0.284	-0.049	0.222	-0.752
03	-0.838	-0.271	-0.458	0.776
04	-5.662	-5.446	-6.948	1.384
05	1.386	-6.948	-6.948	-6.948
06	1.386	-6.948	-6.948	-6.948
07	-6.948	-2.651	-6.948	1.368
08	-3.429	-2.738	0.691	0.645
09	0.723	-3.355	0.578	-2.099
10	-1.228	0.769	-0.038	-0.533
11	-0.444	0.423	-0.134	-0.043
12	0.009	0.117	-0.17	0.022

Standard thresholds

P-value	Threshold
0.001	4.766665
0.0005	6.19002
0.0001	7.66365