SOX17.H12CORE.1.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SOX17.H12CORE.1.P.B
Gene (human)	SOX17 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Sox17
Gene synonyms (mouse)	Sox-17
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	15
Consensus	bYYATTGThTbbddd
GC content	36.72%
Information content (bits; total / per base)	11.512 / 0.767
Data sources	ChIP-Seq
Aligned words	1003

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)	0.861	0.902	0.805	0.857	0.906	0.932	3.938	4.334	222.18	376.155
Mouse	2 (10)	0.684	0.752	0.58	0.678	0.705	0.782	2.226	2.812	73.858	160.721

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.562	0.539	0.539	0.527	0.523	0.518
Non-Methyl HT-SELEX, 2 experiments	best	0.572	0.545	0.545	0.531	0.526	0.521

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.1.P.B.pcm
PWM	SOX17.H12CORE.1.P.B.pwm
PFM	SOX17.H12CORE.1.P.B.pfm
Alignment	SOX17.H12CORE.1.P.B.words.tsv
Threshold to P-value map	SOX17.H12CORE.1.P.B.thr
Motif in other formats
JASPAR format	SOX17.H12CORE.1.P.B_jaspar_format.txt
MEME format	SOX17.H12CORE.1.P.B_meme_format.meme
Transfac format	SOX17.H12CORE.1.P.B_transfac_format.txt
Homer format	SOX17.H12CORE.1.P.B_homer_format_0.001.txt SOX17.H12CORE.1.P.B_homer_format_0.0005.txt SOX17.H12CORE.1.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	137.0	340.0	170.0	356.0
02	42.0	595.0	155.0	211.0
03	53.0	631.0	66.0	253.0
04	668.0	4.0	5.0	326.0
05	1.0	15.0	26.0	961.0
06	1.0	0.0	6.0	996.0
07	24.0	60.0	914.0	5.0
08	30.0	9.0	4.0	960.0
09	447.0	161.0	95.0	300.0
10	49.0	117.0	26.0	811.0
11	46.0	104.0	428.0	425.0
12	69.0	454.0	220.0	260.0
13	428.0	90.0	157.0	328.0
14	440.0	137.0	241.0	185.0
15	532.0	146.0	148.0	177.0

PFM

	A	C	G	T
01	0.137	0.339	0.169	0.355
02	0.042	0.593	0.155	0.21
03	0.053	0.629	0.066	0.252
04	0.666	0.004	0.005	0.325
05	0.001	0.015	0.026	0.958
06	0.001	0.0	0.006	0.993
07	0.024	0.06	0.911	0.005
08	0.03	0.009	0.004	0.957
09	0.446	0.161	0.095	0.299
10	0.049	0.117	0.026	0.809
11	0.046	0.104	0.427	0.424
12	0.069	0.453	0.219	0.259
13	0.427	0.09	0.157	0.327
14	0.439	0.137	0.24	0.184
15	0.53	0.146	0.148	0.176

PWM

	A	C	G	T
01	-0.599	0.303	-0.385	0.348
02	-1.753	0.86	-0.477	-0.171
03	-1.529	0.919	-1.316	0.009
04	0.976	-3.786	-3.625	0.261
05	-4.528	-2.714	-2.209	1.338
06	-4.528	-4.985	-3.487	1.374
07	-2.284	-1.409	1.288	-3.625
08	-2.074	-3.158	-3.786	1.337
09	0.575	-0.439	-0.959	0.178
10	-1.605	-0.754	-2.209	1.169
11	-1.666	-0.87	0.532	0.525
12	-1.272	0.591	-0.13	0.036
13	0.532	-1.012	-0.464	0.267
14	0.559	-0.599	-0.039	-0.302
15	0.749	-0.536	-0.523	-0.345

Standard thresholds

P-value	Threshold
0.001	4.33241
0.0005	5.31721
0.0001	7.30151