HXB6.H12INVITRO.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HXB6.H12INVITRO.0.SM.B
Gene (human)	HOXB6 (GeneCards)
Gene synonyms (human)	HOX2B
Gene (mouse)	Hoxb6
Gene synonyms (mouse)	Hox-2.2, Hoxb-6
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	13
Consensus	nhvYTAATGASbn
GC content	38.43%
Information content (bits; total / per base)	11.066 / 0.851
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	6765

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.862	0.816	0.811	0.77	0.734	0.709
Overall, 2 experiments	best	0.952	0.922	0.918	0.883	0.828	0.804
Methyl HT-SELEX, 1 experiments	median	0.952	0.922	0.918	0.883	0.828	0.804
Methyl HT-SELEX, 1 experiments	best	0.952	0.922	0.918	0.883	0.828	0.804
Non-Methyl HT-SELEX, 1 experiments	median	0.772	0.71	0.703	0.657	0.64	0.614
Non-Methyl HT-SELEX, 1 experiments	best	0.772	0.71	0.703	0.657	0.64	0.614

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: 3.1.1.6.2
HGNC	HGNC:5117
MGI	MGI:96187
EntrezGene (human)	GeneID:3216 (SSTAR profile)
EntrezGene (mouse)	GeneID:15414 (SSTAR profile)
UniProt ID (human)	HXB6_HUMAN
UniProt ID (mouse)	HXB6_MOUSE
UniProt AC (human)	P17509 (TFClass)
UniProt AC (mouse)	P09023 (TFClass)
GRECO-DB-TF	yes

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

PCM	HXB6.H12INVITRO.0.SM.B.pcm
PWM	HXB6.H12INVITRO.0.SM.B.pwm
PFM	HXB6.H12INVITRO.0.SM.B.pfm
Alignment	HXB6.H12INVITRO.0.SM.B.words.tsv
Threshold to P-value map	HXB6.H12INVITRO.0.SM.B.thr
Motif in other formats
JASPAR format	HXB6.H12INVITRO.0.SM.B_jaspar_format.txt
MEME format	HXB6.H12INVITRO.0.SM.B_meme_format.meme
Transfac format	HXB6.H12INVITRO.0.SM.B_transfac_format.txt
Homer format	HXB6.H12INVITRO.0.SM.B_homer_format_0.001.txt HXB6.H12INVITRO.0.SM.B_homer_format_0.0005.txt HXB6.H12INVITRO.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1753.5	1642.5	1540.5	1828.5
02	1150.5	3048.5	1035.5	1530.5
03	2025.75	1482.75	2681.75	574.75
04	619.0	1148.0	224.0	4774.0
05	0.0	1.0	0.0	6764.0
06	6765.0	0.0	0.0	0.0
07	6765.0	0.0	0.0	0.0
08	0.0	1741.0	0.0	5024.0
09	2.0	0.0	4161.0	2602.0
10	4460.0	3.0	2283.0	19.0
11	89.5	4256.5	1350.5	1068.5
12	837.75	2813.75	1465.75	1647.75
13	1816.5	1649.5	1265.5	2033.5

PFM

	A	C	G	T
01	0.259	0.243	0.228	0.27
02	0.17	0.451	0.153	0.226
03	0.299	0.219	0.396	0.085
04	0.092	0.17	0.033	0.706
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	0.257	0.0	0.743
09	0.0	0.0	0.615	0.385
10	0.659	0.0	0.337	0.003
11	0.013	0.629	0.2	0.158
12	0.124	0.416	0.217	0.244
13	0.269	0.244	0.187	0.301

PWM

	A	C	G	T
01	0.036	-0.029	-0.093	0.078
02	-0.385	0.589	-0.49	-0.1
03	0.18	-0.131	0.461	-1.077
04	-1.003	-0.387	-2.013	1.037
05	-6.644	-6.27	-6.644	1.385
06	1.385	-6.644	-6.644	-6.644
07	1.385	-6.644	-6.644	-6.644
08	-6.644	0.029	-6.644	1.088
09	-5.998	-6.644	0.9	0.43
10	0.969	-5.785	0.3	-4.38
11	-2.916	0.922	-0.225	-0.458
12	-0.701	0.509	-0.143	-0.026
13	0.071	-0.025	-0.29	0.184

Standard thresholds

P-value	Threshold
0.001	4.44751
0.0005	5.84431
0.0001	7.698415