SOX12.H12INVIVO.0.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SOX12.H12INVIVO.0.SM.D
Gene (human)	SOX12 (GeneCards)
Gene synonyms (human)	SOX22
Gene (mouse)	Sox12
Gene synonyms (mouse)	Sox-12
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	14
Consensus	nbhATTGTTYbnnn
GC content	42.64%
Information content (bits; total / per base)	11.811 / 0.844
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9999

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.988	0.98	0.972	0.959	0.917	0.902
Overall, 2 experiments	best	0.988	0.982	0.977	0.964	0.941	0.924
Methyl HT-SELEX, 1 experiments	median	0.987	0.979	0.977	0.964	0.941	0.924
Methyl HT-SELEX, 1 experiments	best	0.987	0.979	0.977	0.964	0.941	0.924
Non-Methyl HT-SELEX, 1 experiments	median	0.988	0.982	0.967	0.954	0.894	0.881
Non-Methyl HT-SELEX, 1 experiments	best	0.988	0.982	0.967	0.954	0.894	0.881

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.59	0.188	0.615	0.306

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.H12INVIVO.0.SM.D.pcm
PWM	SOX12.H12INVIVO.0.SM.D.pwm
PFM	SOX12.H12INVIVO.0.SM.D.pfm
Alignment	SOX12.H12INVIVO.0.SM.D.words.tsv
Threshold to P-value map	SOX12.H12INVIVO.0.SM.D.thr
Motif in other formats
JASPAR format	SOX12.H12INVIVO.0.SM.D_jaspar_format.txt
MEME format	SOX12.H12INVIVO.0.SM.D_meme_format.meme
Transfac format	SOX12.H12INVIVO.0.SM.D_transfac_format.txt
Homer format	SOX12.H12INVIVO.0.SM.D_homer_format_0.001.txt SOX12.H12INVIVO.0.SM.D_homer_format_0.0005.txt SOX12.H12INVIVO.0.SM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2089.75	2223.75	2972.75	2712.75
02	1135.5	4018.5	2567.5	2277.5
03	1283.0	5259.0	580.0	2877.0
04	8812.0	93.0	255.0	839.0
05	14.0	75.0	124.0	9786.0
06	3.0	1.0	0.0	9995.0
07	4.0	0.0	9995.0	0.0
08	0.0	5.0	3.0	9991.0
09	91.0	707.0	412.0	8789.0
10	1322.0	6412.0	903.0	1362.0
11	1155.0	2154.0	4638.0	2052.0
12	1421.0	2352.0	3761.0	2465.0
13	1797.25	2073.25	2668.25	3460.25
14	2027.5	2123.5	3319.5	2528.5

PFM

	A	C	G	T
01	0.209	0.222	0.297	0.271
02	0.114	0.402	0.257	0.228
03	0.128	0.526	0.058	0.288
04	0.881	0.009	0.026	0.084
05	0.001	0.008	0.012	0.979
06	0.0	0.0	0.0	1.0
07	0.0	0.0	1.0	0.0
08	0.0	0.001	0.0	0.999
09	0.009	0.071	0.041	0.879
10	0.132	0.641	0.09	0.136
11	0.116	0.215	0.464	0.205
12	0.142	0.235	0.376	0.247
13	0.18	0.207	0.267	0.346
14	0.203	0.212	0.332	0.253

PWM

	A	C	G	T
01	-0.179	-0.117	0.173	0.082
02	-0.788	0.474	0.027	-0.093
03	-0.666	0.743	-1.458	0.14
04	1.259	-3.268	-2.275	-1.09
05	-5.034	-3.477	-2.986	1.364
06	-6.157	-6.63	-6.991	1.385
07	-5.984	-6.991	1.385	-6.991
08	-6.991	-5.837	-6.157	1.385
09	-3.289	-1.261	-1.798	1.257
10	-0.636	0.941	-1.017	-0.606
11	-0.771	-0.149	0.618	-0.197
12	-0.564	-0.061	0.408	-0.014
13	-0.33	-0.187	0.065	0.325
14	-0.209	-0.163	0.283	0.011

Standard thresholds

P-value	Threshold
0.001	3.94001
0.0005	5.19631
0.0001	7.541015