SIX4.H12INVIVO.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SIX4.H12INVIVO.0.P.B
Gene (human)	SIX4 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Six4
Gene synonyms (mouse)	Arec3
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	14
Consensus	WGWAAYnTGAbMCY
GC content	43.2%
Information content (bits; total / per base)	15.687 / 1.12
Data sources	ChIP-Seq
Aligned words	437

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	pseudo-log-auROC, median	pseudo-log-auROC, best	Centrality, median	Centrality, best
Human	1 (6)	0.954	0.964	0.941	0.962	0.972	0.973	7.776	8.355	143.276	352.187
Mouse	1 (7)	0.787	0.802	0.742	0.751	0.794	0.8	3.127	3.241	157.62	182.62

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Methyl HT-SELEX, 1 experiments	median	0.541	0.527	0.528	0.519	0.518	0.513
Methyl HT-SELEX, 1 experiments	best	0.541	0.527	0.528	0.519	0.518	0.513

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	SIX4-like {3.1.6.3} (TFClass)
TFClass ID	TFClass: 3.1.6.3.1
HGNC	HGNC:10890
MGI	MGI:106034
EntrezGene (human)	GeneID:51804 (SSTAR profile)
EntrezGene (mouse)	GeneID:20474 (SSTAR profile)
UniProt ID (human)	SIX4_HUMAN
UniProt ID (mouse)	SIX4_MOUSE
UniProt AC (human)	Q9UIU6 (TFClass)
UniProt AC (mouse)	Q61321 (TFClass)
GRECO-DB-TF	yes

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

PCM	SIX4.H12INVIVO.0.P.B.pcm
PWM	SIX4.H12INVIVO.0.P.B.pwm
PFM	SIX4.H12INVIVO.0.P.B.pfm
Alignment	SIX4.H12INVIVO.0.P.B.words.tsv
Threshold to P-value map	SIX4.H12INVIVO.0.P.B.thr
Motif in other formats
JASPAR format	SIX4.H12INVIVO.0.P.B_jaspar_format.txt
MEME format	SIX4.H12INVIVO.0.P.B_meme_format.meme
Transfac format	SIX4.H12INVIVO.0.P.B_transfac_format.txt
Homer format	SIX4.H12INVIVO.0.P.B_homer_format_0.001.txt SIX4.H12INVIVO.0.P.B_homer_format_0.0005.txt SIX4.H12INVIVO.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	54.0	7.0	52.0	324.0
02	2.0	0.0	432.0	3.0
03	171.0	19.0	8.0	239.0
04	419.0	8.0	1.0	9.0
05	431.0	2.0	2.0	2.0
06	3.0	258.0	6.0	170.0
07	105.0	215.0	12.0	105.0
08	9.0	47.0	13.0	368.0
09	10.0	1.0	420.0	6.0
10	433.0	3.0	0.0	1.0
11	26.0	223.0	97.0	91.0
12	285.0	114.0	18.0	20.0
13	17.0	348.0	6.0	66.0
14	24.0	280.0	51.0	82.0

PFM

	A	C	G	T
01	0.124	0.016	0.119	0.741
02	0.005	0.0	0.989	0.007
03	0.391	0.043	0.018	0.547
04	0.959	0.018	0.002	0.021
05	0.986	0.005	0.005	0.005
06	0.007	0.59	0.014	0.389
07	0.24	0.492	0.027	0.24
08	0.021	0.108	0.03	0.842
09	0.023	0.002	0.961	0.014
10	0.991	0.007	0.0	0.002
11	0.059	0.51	0.222	0.208
12	0.652	0.261	0.041	0.046
13	0.039	0.796	0.014	0.151
14	0.055	0.641	0.117	0.188

PWM

	A	C	G	T
01	-0.691	-2.565	-0.727	1.078
02	-3.449	-4.289	1.364	-3.199
03	0.443	-1.686	-2.454	0.775
04	1.334	-2.454	-3.783	-2.354
05	1.362	-3.449	-3.449	-3.449
06	-3.199	0.851	-2.69	0.437
07	-0.039	0.67	-2.103	-0.039
08	-2.354	-0.825	-2.032	1.205
09	-2.263	-3.783	1.336	-2.69
10	1.367	-3.199	-4.289	-3.783
11	-1.393	0.707	-0.117	-0.18
12	0.95	0.042	-1.736	-1.638
13	-1.789	1.149	-2.69	-0.495
14	-1.468	0.933	-0.746	-0.282

Standard thresholds

P-value	Threshold
0.001	2.66261
0.0005	3.88366
0.0001	6.43622