SIX6.H12INVITRO.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SIX6.H12INVITRO.0.SM.B
Gene (human)	SIX6 (GeneCards)
Gene synonyms (human)	OPTX2, SIX9
Gene (mouse)	Six6
Gene synonyms (mouse)	Optx2, Six9
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	9
Consensus	nYGATAYbn
GC content	44.55%
Information content (bits; total / per base)	8.528 / 0.948
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9702

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.876	0.821	0.814	0.764	0.723	0.695
Overall, 2 experiments	best	0.891	0.841	0.831	0.782	0.745	0.713
Methyl HT-SELEX, 1 experiments	median	0.861	0.801	0.797	0.745	0.701	0.676
Methyl HT-SELEX, 1 experiments	best	0.861	0.801	0.797	0.745	0.701	0.676
Non-Methyl HT-SELEX, 1 experiments	median	0.891	0.841	0.831	0.782	0.745	0.713
Non-Methyl HT-SELEX, 1 experiments	best	0.891	0.841	0.831	0.782	0.745	0.713

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	HD-SINE {3.1.6} (TFClass)
TF subfamily	SIX3-like {3.1.6.2} (TFClass)
TFClass ID	TFClass: 3.1.6.2.2
HGNC	HGNC:10892
MGI	MGI:1341840
EntrezGene (human)	GeneID:4990 (SSTAR profile)
EntrezGene (mouse)	GeneID:20476 (SSTAR profile)
UniProt ID (human)	SIX6_HUMAN
UniProt ID (mouse)	SIX6_MOUSE
UniProt AC (human)	O95475 (TFClass)
UniProt AC (mouse)	Q9QZ28 (TFClass)
GRECO-DB-TF	yes

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

PCM	SIX6.H12INVITRO.0.SM.B.pcm
PWM	SIX6.H12INVITRO.0.SM.B.pwm
PFM	SIX6.H12INVITRO.0.SM.B.pfm
Alignment	SIX6.H12INVITRO.0.SM.B.words.tsv
Threshold to P-value map	SIX6.H12INVITRO.0.SM.B.thr
Motif in other formats
JASPAR format	SIX6.H12INVITRO.0.SM.B_jaspar_format.txt
MEME format	SIX6.H12INVITRO.0.SM.B_meme_format.meme
Transfac format	SIX6.H12INVITRO.0.SM.B_transfac_format.txt
Homer format	SIX6.H12INVITRO.0.SM.B_homer_format_0.001.txt SIX6.H12INVITRO.0.SM.B_homer_format_0.0005.txt SIX6.H12INVITRO.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2827.75	1422.75	3287.75	2163.75
02	424.25	3144.25	879.25	5254.25
03	23.0	1.0	9669.0	9.0
04	9671.0	8.0	4.0	19.0
05	36.0	22.0	1.0	9643.0
06	8657.0	994.0	48.0	3.0
07	666.0	6020.0	1302.0	1714.0
08	1260.5	3744.5	3276.5	1420.5
09	2018.5	2690.5	2384.5	2608.5

PFM

	A	C	G	T
01	0.291	0.147	0.339	0.223
02	0.044	0.324	0.091	0.542
03	0.002	0.0	0.997	0.001
04	0.997	0.001	0.0	0.002
05	0.004	0.002	0.0	0.994
06	0.892	0.102	0.005	0.0
07	0.069	0.62	0.134	0.177
08	0.13	0.386	0.338	0.146
09	0.208	0.277	0.246	0.269

PWM

	A	C	G	T
01	0.153	-0.533	0.304	-0.114
02	-1.739	0.259	-1.013	0.772
03	-4.564	-6.602	1.382	-5.37
04	1.382	-5.463	-5.955	-4.736
05	-4.149	-4.604	-6.602	1.379
06	1.272	-0.891	-3.877	-6.128
07	-1.29	0.908	-0.621	-0.347
08	-0.654	0.434	0.3	-0.534
09	-0.183	0.104	-0.017	0.073

Standard thresholds

P-value	Threshold
0.001	5.48069
0.0005	6.129505
0.0001	7.26429