SOX17.H12CORE.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SOX17.H12CORE.0.PS.A
Gene (human)	SOX17 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Sox17
Gene synonyms (mouse)	Sox-17
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	12
Consensus	bSYATTGThYbb
GC content	42.0%
Information content (bits; total / per base)	10.481 / 0.873
Data sources	ChIP-Seq + HT-SELEX
Aligned words	988

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	5 (31)	0.877	0.901	0.798	0.828	0.888	0.906	3.136	3.308	216.337	324.041
Mouse	2 (10)	0.751	0.814	0.688	0.75	0.767	0.828	2.602	2.907	115.543	188.244

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.595	0.565	0.56	0.544	0.537	0.53
Non-Methyl HT-SELEX, 2 experiments	best	0.607	0.574	0.567	0.549	0.54	0.533

TF superclass	Other all-alpha-helical DNA-binding domains {4} (TFClass)
TF class	High-mobility group (HMG) domain factors {4.1} (TFClass)
TF family	SOX-related {4.1.1} (TFClass)
TF subfamily	Group F {4.1.1.6} (TFClass)
TFClass ID	TFClass: 4.1.1.6.2
HGNC	HGNC:18122
MGI	MGI:107543
EntrezGene (human)	GeneID:64321 (SSTAR profile)
EntrezGene (mouse)	GeneID:20671 (SSTAR profile)
UniProt ID (human)	SOX17_HUMAN
UniProt ID (mouse)	SOX17_MOUSE
UniProt AC (human)	Q9H6I2 (TFClass)
UniProt AC (mouse)	Q61473 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	5 human, 2 mouse
HT-SELEX	2
Methyl-HT-SELEX	0

PCM	SOX17.H12CORE.0.PS.A.pcm
PWM	SOX17.H12CORE.0.PS.A.pwm
PFM	SOX17.H12CORE.0.PS.A.pfm
Alignment	SOX17.H12CORE.0.PS.A.words.tsv
Threshold to P-value map	SOX17.H12CORE.0.PS.A.thr
Motif in other formats
JASPAR format	SOX17.H12CORE.0.PS.A_jaspar_format.txt
MEME format	SOX17.H12CORE.0.PS.A_meme_format.meme
Transfac format	SOX17.H12CORE.0.PS.A_transfac_format.txt
Homer format	SOX17.H12CORE.0.PS.A_homer_format_0.001.txt SOX17.H12CORE.0.PS.A_homer_format_0.0005.txt SOX17.H12CORE.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	114.0	285.0	276.0	313.0
02	40.0	621.0	181.0	146.0
03	36.0	678.0	27.0	247.0
04	772.0	20.0	12.0	184.0
05	2.0	24.0	14.0	948.0
06	3.0	8.0	4.0	973.0
07	6.0	33.0	913.0	36.0
08	15.0	14.0	4.0	955.0
09	231.0	228.0	106.0	423.0
10	67.0	302.0	23.0	596.0
11	82.0	194.0	370.0	342.0
12	112.0	441.0	201.0	234.0

PFM

	A	C	G	T
01	0.115	0.288	0.279	0.317
02	0.04	0.629	0.183	0.148
03	0.036	0.686	0.027	0.25
04	0.781	0.02	0.012	0.186
05	0.002	0.024	0.014	0.96
06	0.003	0.008	0.004	0.985
07	0.006	0.033	0.924	0.036
08	0.015	0.014	0.004	0.967
09	0.234	0.231	0.107	0.428
10	0.068	0.306	0.023	0.603
11	0.083	0.196	0.374	0.346
12	0.113	0.446	0.203	0.237

PWM

	A	C	G	T
01	-0.765	0.142	0.11	0.235
02	-1.785	0.918	-0.308	-0.521
03	-1.886	1.005	-2.159	0.0
04	1.135	-2.438	-2.897	-0.292
05	-4.202	-2.269	-2.761	1.34
06	-3.964	-3.242	-3.772	1.366
07	-3.472	-1.969	1.302	-1.886
08	-2.7	-2.761	-3.772	1.347
09	-0.066	-0.079	-0.837	0.535
10	-1.286	0.2	-2.309	0.877
11	-1.089	-0.24	0.402	0.323
12	-0.783	0.577	-0.204	-0.054

Standard thresholds

P-value	Threshold
0.001	4.59992
0.0005	5.52594
0.0001	7.44438