SOX12.H12RSNP.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SOX12.H12RSNP.0.SM.B
Gene (human)	SOX12 (GeneCards)
Gene synonyms (human)	SOX22
Gene (mouse)	Sox12
Gene synonyms (mouse)	Sox-12
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	12
Consensus	nbYATTGTTMbn
GC content	40.07%
Information content (bits; total / per base)	13.481 / 1.123
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	2385

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.986	0.977	0.966	0.952	0.897	0.883
Overall, 2 experiments	best	0.987	0.978	0.975	0.962	0.928	0.912
Methyl HT-SELEX, 1 experiments	median	0.987	0.978	0.975	0.962	0.928	0.912
Methyl HT-SELEX, 1 experiments	best	0.987	0.978	0.975	0.962	0.928	0.912
Non-Methyl HT-SELEX, 1 experiments	median	0.984	0.975	0.957	0.942	0.866	0.855
Non-Methyl HT-SELEX, 1 experiments	best	0.984	0.975	0.957	0.942	0.866	0.855

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.618	0.204	0.586	0.358

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 C {4.1.1.3} (TFClass)
TFClass ID	TFClass: 4.1.1.3.3
HGNC	HGNC:11198
MGI	MGI:98360
EntrezGene (human)	GeneID:6666 (SSTAR profile)
EntrezGene (mouse)	GeneID:20667 (SSTAR profile)
UniProt ID (human)	SOX12_HUMAN
UniProt ID (mouse)	SOX12_MOUSE
UniProt AC (human)	O15370 (TFClass)
UniProt AC (mouse)	Q04890 (TFClass)
GRECO-DB-TF	yes

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

PCM	SOX12.H12RSNP.0.SM.B.pcm
PWM	SOX12.H12RSNP.0.SM.B.pwm
PFM	SOX12.H12RSNP.0.SM.B.pfm
Alignment	SOX12.H12RSNP.0.SM.B.words.tsv
Threshold to P-value map	SOX12.H12RSNP.0.SM.B.thr
Motif in other formats
JASPAR format	SOX12.H12RSNP.0.SM.B_jaspar_format.txt
MEME format	SOX12.H12RSNP.0.SM.B_meme_format.meme
Transfac format	SOX12.H12RSNP.0.SM.B_transfac_format.txt
Homer format	SOX12.H12RSNP.0.SM.B_homer_format_0.001.txt SOX12.H12RSNP.0.SM.B_homer_format_0.0005.txt SOX12.H12RSNP.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	561.25	530.25	757.25	536.25
02	181.5	1294.5	485.5	423.5
03	380.0	1106.0	32.0	867.0
04	2308.0	0.0	0.0	77.0
05	0.0	0.0	0.0	2385.0
06	0.0	0.0	0.0	2385.0
07	0.0	0.0	2385.0	0.0
08	0.0	0.0	0.0	2385.0
09	0.0	28.0	2.0	2355.0
10	389.0	1724.0	167.0	105.0
11	184.5	610.5	998.5	591.5
12	367.5	664.5	683.5	669.5

PFM

	A	C	G	T
01	0.235	0.222	0.318	0.225
02	0.076	0.543	0.204	0.178
03	0.159	0.464	0.013	0.364
04	0.968	0.0	0.0	0.032
05	0.0	0.0	0.0	1.0
06	0.0	0.0	0.0	1.0
07	0.0	0.0	1.0	0.0
08	0.0	0.0	0.0	1.0
09	0.0	0.012	0.001	0.987
10	0.163	0.723	0.07	0.044
11	0.077	0.256	0.419	0.248
12	0.154	0.279	0.287	0.281

PWM

	A	C	G	T
01	-0.06	-0.117	0.238	-0.106
02	-1.182	0.773	-0.205	-0.341
03	-0.449	0.616	-2.869	0.373
04	1.351	-5.729	-5.729	-2.025
05	-5.729	-5.729	-5.729	1.384
06	-5.729	-5.729	-5.729	1.384
07	-5.729	-5.729	1.384	-5.729
08	-5.729	-5.729	-5.729	1.384
09	-5.729	-2.995	-5.022	1.371
10	-0.425	1.06	-1.264	-1.722
11	-1.166	0.024	0.514	-0.008
12	-0.482	0.108	0.136	0.116

Standard thresholds

P-value	Threshold
0.001	2.05193
0.0005	3.389835
0.0001	7.26669