HXB1.H12INVITRO.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HXB1.H12INVITRO.0.SM.B
Gene (human)	HOXB1 (GeneCards)
Gene synonyms (human)	HOX2I
Gene (mouse)	Hoxb1
Gene synonyms (mouse)	Hox-2.9, Hoxb-1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	12
Consensus	nnvYTAATYAvn
GC content	34.7%
Information content (bits; total / per base)	11.153 / 0.929
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	7459

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.938	0.903	0.903	0.863	0.836	0.803
Overall, 2 experiments	best	0.954	0.926	0.934	0.899	0.891	0.854
Methyl HT-SELEX, 1 experiments	median	0.921	0.879	0.872	0.827	0.782	0.752
Methyl HT-SELEX, 1 experiments	best	0.921	0.879	0.872	0.827	0.782	0.752
Non-Methyl HT-SELEX, 1 experiments	median	0.954	0.926	0.934	0.899	0.891	0.854
Non-Methyl HT-SELEX, 1 experiments	best	0.954	0.926	0.934	0.899	0.891	0.854

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: 3.1.1.1.2
HGNC	HGNC:5111
MGI	MGI:96182
EntrezGene (human)	GeneID:3211 (SSTAR profile)
EntrezGene (mouse)	GeneID:15407 (SSTAR profile)
UniProt ID (human)	HXB1_HUMAN
UniProt ID (mouse)	HXB1_MOUSE
UniProt AC (human)	P14653 (TFClass)
UniProt AC (mouse)	P17919 (TFClass)
GRECO-DB-TF	yes

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

PCM	HXB1.H12INVITRO.0.SM.B.pcm
PWM	HXB1.H12INVITRO.0.SM.B.pwm
PFM	HXB1.H12INVITRO.0.SM.B.pfm
Alignment	HXB1.H12INVITRO.0.SM.B.words.tsv
Threshold to P-value map	HXB1.H12INVITRO.0.SM.B.thr
Motif in other formats
JASPAR format	HXB1.H12INVITRO.0.SM.B_jaspar_format.txt
MEME format	HXB1.H12INVITRO.0.SM.B_meme_format.meme
Transfac format	HXB1.H12INVITRO.0.SM.B_transfac_format.txt
Homer format	HXB1.H12INVITRO.0.SM.B_homer_format_0.001.txt HXB1.H12INVITRO.0.SM.B_homer_format_0.0005.txt HXB1.H12INVITRO.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1683.0	1716.0	1757.0	2303.0
02	1517.0	2515.0	2169.0	1258.0
03	1559.0	2270.0	3416.0	214.0
04	8.0	3155.0	1536.0	2760.0
05	0.0	0.0	0.0	7459.0
06	7459.0	0.0	0.0	0.0
07	7459.0	0.0	0.0	0.0
08	0.0	0.0	0.0	7459.0
09	0.0	1020.0	841.0	5598.0
10	5798.0	24.0	1609.0	28.0
11	1161.25	3130.25	2182.25	985.25
12	1695.5	1914.5	1800.5	2048.5

PFM

	A	C	G	T
01	0.226	0.23	0.236	0.309
02	0.203	0.337	0.291	0.169
03	0.209	0.304	0.458	0.029
04	0.001	0.423	0.206	0.37
05	0.0	0.0	0.0	1.0
06	1.0	0.0	0.0	0.0
07	1.0	0.0	0.0	0.0
08	0.0	0.0	0.0	1.0
09	0.0	0.137	0.113	0.751
10	0.777	0.003	0.216	0.004
11	0.156	0.42	0.293	0.132
12	0.227	0.257	0.241	0.275

PWM

	A	C	G	T
01	-0.102	-0.083	-0.059	0.211
02	-0.206	0.299	0.151	-0.393
03	-0.179	0.196	0.605	-2.156
04	-5.207	0.525	-0.194	0.392
05	-6.73	-6.73	-6.73	1.385
06	1.385	-6.73	-6.73	-6.73
07	1.385	-6.73	-6.73	-6.73
08	-6.73	-6.73	-6.73	1.385
09	-6.73	-0.602	-0.795	1.098
10	1.134	-4.265	-0.147	-4.123
11	-0.473	0.518	0.157	-0.637
12	-0.095	0.026	-0.035	0.094

Standard thresholds

P-value	Threshold
0.001	3.66915
0.0005	5.875245
0.0001	7.82252