DMRT3.H14RSNP.0.S.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	DMRT3.H14RSNP.0.S.C
Gene (human)	DMRT3 (GeneCards)
Gene synonyms (human)	DMRTA3
Gene (mouse)	Dmrt3
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	C

Motif length	16
Consensus	nvRATGTAWCAAWWYn
GC content	26.45%
Information content (bits; total / per base)	17.415 / 1.088
Data sources	HT-SELEX
Aligned words	9964
Previous names	DMRT3.H12RSNP.0.S.C

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 1 experiments	median	1.0	0.999	0.997	0.997	0.928	0.932
Non-Methyl HT-SELEX, 1 experiments	best	1.0	0.999	0.997	0.997	0.928	0.932

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.661	0.387	0.762	0.594

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	DM-type intertwined zinc finger factors {2.5} (TFClass)
TF family	DMRT {2.5.1} (TFClass)
TF subfamily	{2.5.1.0} (TFClass)
TFClass ID	TFClass: 2.5.1.0.3
HGNC	HGNC:13909
MGI	MGI:2449470
EntrezGene (human)	GeneID:58524 (SSTAR profile)
EntrezGene (mouse)	GeneID:240590 (SSTAR profile)
UniProt ID (human)	DMRT3_HUMAN
UniProt ID (mouse)	DMRT3_MOUSE
UniProt AC (human)	Q9NQL9 (TFClass)
UniProt AC (mouse)	Q80WT2 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	1
Methyl-HT-SELEX	0
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	DMRT3.H14RSNP.0.S.C.pcm
PWM	DMRT3.H14RSNP.0.S.C.pwm
PFM	DMRT3.H14RSNP.0.S.C.pfm
Threshold to P-value map	DMRT3.H14RSNP.0.S.C.thr
Motif in other formats
JASPAR format	DMRT3.H14RSNP.0.S.C_jaspar_format.txt
MEME format	DMRT3.H14RSNP.0.S.C_meme_format.meme
Transfac format	DMRT3.H14RSNP.0.S.C_transfac_format.txt
Homer format	DMRT3.H14RSNP.0.S.C_homer_format_0.001.txt DMRT3.H14RSNP.0.S.C_homer_format_0.0005.txt DMRT3.H14RSNP.0.S.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3206.25	2346.25	2449.25	1962.25
02	4660.25	2280.25	1701.25	1322.25
03	7955.0	416.0	918.0	675.0
04	8009.0	134.0	195.0	1626.0
05	293.0	11.0	15.0	9645.0
06	4.0	2.0	9958.0	0.0
07	4.0	1.0	2.0	9957.0
08	9875.0	1.0	4.0	84.0
09	2395.0	3.0	378.0	7188.0
10	11.0	9936.0	11.0	6.0
11	8221.0	470.0	962.0	311.0
12	8336.0	196.0	237.0	1195.0
13	2043.0	337.0	233.0	7351.0
14	1281.0	787.0	542.0	7354.0
15	860.0	1553.0	1169.0	6382.0
16	1872.75	2305.75	2617.75	3167.75

PFM

	A	C	G	T
01	0.322	0.235	0.246	0.197
02	0.468	0.229	0.171	0.133
03	0.798	0.042	0.092	0.068
04	0.804	0.013	0.02	0.163
05	0.029	0.001	0.002	0.968
06	0.0	0.0	0.999	0.0
07	0.0	0.0	0.0	0.999
08	0.991	0.0	0.0	0.008
09	0.24	0.0	0.038	0.721
10	0.001	0.997	0.001	0.001
11	0.825	0.047	0.097	0.031
12	0.837	0.02	0.024	0.12
13	0.205	0.034	0.023	0.738
14	0.129	0.079	0.054	0.738
15	0.086	0.156	0.117	0.641
16	0.188	0.231	0.263	0.318

PWM

	A	C	G	T
01	0.252	-0.06	-0.017	-0.238
02	0.626	-0.088	-0.381	-0.633
03	1.16	-1.785	-0.997	-1.303
04	1.167	-2.906	-2.537	-0.426
05	-2.133	-5.233	-4.971	1.353
06	-5.981	-6.362	1.385	-6.988
07	-5.981	-6.627	-6.362	1.385
08	1.377	-6.627	-5.981	-3.364
09	-0.039	-6.153	-1.88	1.059
10	-5.233	1.383	-5.233	-5.705
11	1.193	-1.664	-0.95	-2.074
12	1.207	-2.532	-2.344	-0.734
13	-0.198	-1.994	-2.36	1.082
14	-0.664	-1.15	-1.522	1.082
15	-1.062	-0.472	-0.755	0.94
16	-0.285	-0.077	0.05	0.24

Standard thresholds

P-value	Threshold
0.001	0.42031
0.0005	2.05656
0.0001	5.42031