PRDM10.H13RSNP.0.PSGI.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PRDM10.H13RSNP.0.PSGI.D
Gene (human)	PRDM10 (GeneCards)
Gene synonyms (human)	KIAA1231, PFM7, TRIS
Gene (mouse)	Prdm10
Gene synonyms (mouse)	Gm1112, Tris
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	15
Consensus	vvWTGGTWYvdYCCd
GC content	48.65%
Information content (bits; total / per base)	14.325 / 0.955
Data sources	ChIP-Seq + HT-SELEX + Genomic HT-SELEX + SMiLe-Seq
Aligned words	498
Previous names

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	Centrality, median	Centrality, best
Overall	2 (2)	0.74	0.752	0.634	0.658	0.627	0.634	37.178	37.886

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
overall, 3 experiments	median	0.999	0.998	0.841	0.86	0.671	0.715
overall, 3 experiments	best	1.0	1.0	1.0	1.0	1.0	0.999
Lysate, 2 experiments	median	0.982	0.981	0.803	0.823	0.651	0.692
Lysate, 2 experiments	best	0.999	0.998	0.841	0.86	0.671	0.715
GFPIVT, 1 experiments	median	1.0	1.0	1.0	1.0	1.0	0.999
GFPIVT, 1 experiments	best	1.0	1.0	1.0	1.0	1.0	0.999

Genomic HT-SELEX benchmarking		Centrality	pseudo-auROC	auROC	auPR
GFPIVT, 1 experiments	median	359.949	0.93	0.942	0.917
GFPIVT, 1 experiments	best	543.102	0.93	0.943	0.918

SMiLE-Seq benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 1 experiments	median	0.936	0.909	0.837	0.812	0.718	0.713
Overall, 1 experiments	best	0.936	0.909	0.837	0.812	0.718	0.713

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	C2H2 zinc finger factors {2.3} (TFClass)
TF family	Multiple dispersed zinc fingers {2.3.4} (TFClass)
TF subfamily	Unclassified {2.3.4.0} (TFClass)
TFClass ID	TFClass: 2.3.4.0.34
HGNC	HGNC:13995
MGI	MGI:2682952
EntrezGene (human)	GeneID:56980 (SSTAR profile)
EntrezGene (mouse)
UniProt ID (human)	PRD10_HUMAN
UniProt ID (mouse)	PRD10_MOUSE
UniProt AC (human)	Q9NQV6 (TFClass)
UniProt AC (mouse)	Q3UTQ7 (TFClass)
GRECO-DB-TF	no

ChIP-Seq	2 human, 0 mouse
HT-SELEX	3 overall: 2 Lysate, 0 IVT, 1 GFPIVT
Genomic HT-SELEX	1 overall: 0 Lysate, 0 IVT, 1 GFPIVT
SMiLE-Seq	1
PBM	0

PCM	PRDM10.H13RSNP.0.PSGI.D.pcm
PWM	PRDM10.H13RSNP.0.PSGI.D.pwm
PFM	PRDM10.H13RSNP.0.PSGI.D.pfm
Threshold to P-value map	PRDM10.H13RSNP.0.PSGI.D.thr
Motif in other formats
JASPAR format	PRDM10.H13RSNP.0.PSGI.D_jaspar_format.txt
MEME format	PRDM10.H13RSNP.0.PSGI.D_meme_format.meme
Transfac format	PRDM10.H13RSNP.0.PSGI.D_transfac_format.txt
Homer format	PRDM10.H13RSNP.0.PSGI.D_homer_format_0.001.txt PRDM10.H13RSNP.0.PSGI.D_homer_format_0.0005.txt PRDM10.H13RSNP.0.PSGI.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	218.0	128.0	95.0	57.0
02	227.0	96.0	127.0	48.0
03	274.0	2.0	94.0	128.0
04	0.0	1.0	0.0	497.0
05	2.0	0.0	496.0	0.0
06	2.0	0.0	496.0	0.0
07	60.0	6.0	7.0	425.0
08	305.0	66.0	15.0	112.0
09	2.0	241.0	20.0	235.0
10	213.0	125.0	129.0	31.0
11	62.0	27.0	221.0	188.0
12	5.0	182.0	22.0	289.0
13	0.0	496.0	0.0	2.0
14	5.0	418.0	4.0	71.0
15	280.0	24.0	96.0	98.0

PFM

	A	C	G	T
01	0.438	0.257	0.191	0.114
02	0.456	0.193	0.255	0.096
03	0.55	0.004	0.189	0.257
04	0.0	0.002	0.0	0.998
05	0.004	0.0	0.996	0.0
06	0.004	0.0	0.996	0.0
07	0.12	0.012	0.014	0.853
08	0.612	0.133	0.03	0.225
09	0.004	0.484	0.04	0.472
10	0.428	0.251	0.259	0.062
11	0.124	0.054	0.444	0.378
12	0.01	0.365	0.044	0.58
13	0.0	0.996	0.0	0.004
14	0.01	0.839	0.008	0.143
15	0.562	0.048	0.193	0.197

PWM

	A	C	G	T
01	0.555	0.027	-0.267	-0.767
02	0.595	-0.256	0.02	-0.934
03	0.782	-3.569	-0.277	0.027
04	-4.397	-3.9	-4.397	1.375
05	-3.569	-4.397	1.373	-4.397
06	-3.569	-4.397	1.373	-4.397
07	-0.717	-2.815	-2.69	1.219
08	0.889	-0.624	-2.03	-0.104
09	-3.569	0.655	-1.766	0.629
10	0.532	0.004	0.035	-1.354
11	-0.685	-1.485	0.568	0.408
12	-2.957	0.376	-1.677	0.835
13	-4.397	1.373	-4.397	-3.569
14	-2.957	1.202	-3.122	-0.552
15	0.804	-1.596	-0.256	-0.236

Standard thresholds

P-value	Threshold
0.001	2.98191
0.0005	4.24126
0.0001	6.83721