SOX1.H12INVIVO.0.S.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SOX1.H12INVIVO.0.S.D
Gene (human)	SOX1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Sox1
Gene synonyms (mouse)	Sox-1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	17
Consensus	dWSAATWnCATTCWYhn
GC content	30.94%
Information content (bits; total / per base)	17.635 / 1.037
Data sources	HT-SELEX
Aligned words	455

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.605	0.588	0.564	0.554	0.54	0.536
Non-Methyl HT-SELEX, 2 experiments	best	0.636	0.621	0.579	0.572	0.547	0.546

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 B {4.1.1.2} (TFClass)
TFClass ID	TFClass: 4.1.1.2.1
HGNC	HGNC:11189
MGI	MGI:98357
EntrezGene (human)	GeneID:6656 (SSTAR profile)
EntrezGene (mouse)	GeneID:20664 (SSTAR profile)
UniProt ID (human)	SOX1_HUMAN
UniProt ID (mouse)	SOX1_MOUSE
UniProt AC (human)	O00570 (TFClass)
UniProt AC (mouse)	P53783 (TFClass)
GRECO-DB-TF	yes

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

PCM	SOX1.H12INVIVO.0.S.D.pcm
PWM	SOX1.H12INVIVO.0.S.D.pwm
PFM	SOX1.H12INVIVO.0.S.D.pfm
Alignment	SOX1.H12INVIVO.0.S.D.words.tsv
Threshold to P-value map	SOX1.H12INVIVO.0.S.D.thr
Motif in other formats
JASPAR format	SOX1.H12INVIVO.0.S.D_jaspar_format.txt
MEME format	SOX1.H12INVIVO.0.S.D_meme_format.meme
Transfac format	SOX1.H12INVIVO.0.S.D_transfac_format.txt
Homer format	SOX1.H12INVIVO.0.S.D_homer_format_0.001.txt SOX1.H12INVIVO.0.S.D_homer_format_0.0005.txt SOX1.H12INVIVO.0.S.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	236.0	60.0	77.0	82.0
02	117.25	27.25	12.25	298.25
03	10.0	116.0	320.0	9.0
04	418.0	26.0	8.0	3.0
05	408.0	27.0	5.0	15.0
06	1.0	5.0	4.0	445.0
07	276.0	9.0	68.0	102.0
08	152.0	114.0	78.0	111.0
09	0.0	452.0	0.0	3.0
10	454.0	1.0	0.0	0.0
11	0.0	0.0	0.0	455.0
12	0.0	0.0	0.0	455.0
13	0.0	363.0	90.0	2.0
14	295.0	38.0	25.0	97.0
15	36.0	116.0	31.0	272.0
16	110.5	91.5	56.5	196.5
17	103.75	94.75	77.75	178.75

PFM

	A	C	G	T
01	0.519	0.132	0.169	0.18
02	0.258	0.06	0.027	0.655
03	0.022	0.255	0.703	0.02
04	0.919	0.057	0.018	0.007
05	0.897	0.059	0.011	0.033
06	0.002	0.011	0.009	0.978
07	0.607	0.02	0.149	0.224
08	0.334	0.251	0.171	0.244
09	0.0	0.993	0.0	0.007
10	0.998	0.002	0.0	0.0
11	0.0	0.0	0.0	1.0
12	0.0	0.0	0.0	1.0
13	0.0	0.798	0.198	0.004
14	0.648	0.084	0.055	0.213
15	0.079	0.255	0.068	0.598
16	0.243	0.201	0.124	0.432
17	0.228	0.208	0.171	0.393

PWM

	A	C	G	T
01	0.723	-0.628	-0.384	-0.322
02	0.03	-1.388	-2.124	0.956
03	-2.302	0.019	1.026	-2.393
04	1.292	-1.432	-2.493	-3.237
05	1.268	-1.396	-2.871	-1.942
06	-3.819	-2.871	-3.037	1.354
07	0.879	-2.393	-0.506	-0.108
08	0.287	0.002	-0.371	-0.024
09	-4.322	1.37	-4.322	-3.237
10	1.374	-3.819	-4.322	-4.322
11	-4.322	-4.322	-4.322	1.376
12	-4.322	-4.322	-4.322	1.376
13	-4.322	1.151	-0.231	-3.486
14	0.945	-1.07	-1.469	-0.157
15	-1.122	0.019	-1.265	0.864
16	-0.029	-0.214	-0.686	0.541
17	-0.091	-0.18	-0.374	0.447

Standard thresholds

P-value	Threshold
0.001	1.33581
0.0005	2.73796
0.0001	5.67821