ZNF728.H13RSNP.0.PSG.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ZNF728.H13RSNP.0.PSG.D
Gene (human)	ZNF728 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Znf728
Gene synonyms (mouse)	Zfp458
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	21
Consensus	RYKKRdnbvMCWGKvMYCAGC
GC content	56.11%
Information content (bits; total / per base)	16.536 / 0.787
Data sources	ChIP-Seq + HT-SELEX + Genomic HT-SELEX
Aligned words	449
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)	0.911	0.954	0.892	0.95	0.813	0.946	112.886	144.886

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
GFPIVT, 2 experiments	median	0.784	0.781	0.653	0.664	0.576	0.596
GFPIVT, 2 experiments	best	0.885	0.869	0.732	0.731	0.62	0.64

Genomic HT-SELEX benchmarking		Centrality	pseudo-auROC	auROC	auPR
GFPIVT, 2 experiments	median	127.134	0.841	0.852	0.843
GFPIVT, 2 experiments	best	430.108	0.889	0.894	0.889

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	C2H2 zinc finger factors {2.3} (TFClass)
TF family	More than 3 adjacent zinc fingers {2.3.3} (TFClass)
TF subfamily	Unclassified {2.3.3.0} (TFClass)
TFClass ID	TFClass: 2.3.3.0.238
HGNC	HGNC:32463
MGI	MGI:3040691
EntrezGene (human)	GeneID:388523 (SSTAR profile)
EntrezGene (mouse)	GeneID:238690 (SSTAR profile)
UniProt ID (human)	ZN728_HUMAN
UniProt ID (mouse)	ZN728_MOUSE
UniProt AC (human)	P0DKX0 (TFClass)
UniProt AC (mouse)	Q6P5C7 (TFClass)
GRECO-DB-TF	yes

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

PCM	ZNF728.H13RSNP.0.PSG.D.pcm
PWM	ZNF728.H13RSNP.0.PSG.D.pwm
PFM	ZNF728.H13RSNP.0.PSG.D.pfm
Threshold to P-value map	ZNF728.H13RSNP.0.PSG.D.thr
Motif in other formats
JASPAR format	ZNF728.H13RSNP.0.PSG.D_jaspar_format.txt
MEME format	ZNF728.H13RSNP.0.PSG.D_meme_format.meme
Transfac format	ZNF728.H13RSNP.0.PSG.D_transfac_format.txt
Homer format	ZNF728.H13RSNP.0.PSG.D_homer_format_0.001.txt ZNF728.H13RSNP.0.PSG.D_homer_format_0.0005.txt ZNF728.H13RSNP.0.PSG.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	132.0	28.0	280.0	9.0
02	37.0	66.0	40.0	306.0
03	69.0	19.0	99.0	262.0
04	31.0	13.0	296.0	109.0
05	42.0	28.0	338.0	41.0
06	150.0	28.0	99.0	172.0
07	114.0	61.0	113.0	161.0
08	22.0	161.0	65.0	201.0
09	74.0	151.0	171.0	53.0
10	244.0	186.0	10.0	9.0
11	13.0	381.0	25.0	30.0
12	118.0	23.0	4.0	304.0
13	54.0	8.0	382.0	5.0
14	6.0	9.0	253.0	181.0
15	254.0	64.0	90.0	41.0
16	263.0	146.0	13.0	27.0
17	15.0	348.0	26.0	60.0
18	20.0	406.0	14.0	9.0
19	424.0	3.0	18.0	4.0
20	5.0	8.0	429.0	7.0
21	25.0	373.0	16.0	35.0

PFM

	A	C	G	T
01	0.294	0.062	0.624	0.02
02	0.082	0.147	0.089	0.682
03	0.154	0.042	0.22	0.584
04	0.069	0.029	0.659	0.243
05	0.094	0.062	0.753	0.091
06	0.334	0.062	0.22	0.383
07	0.254	0.136	0.252	0.359
08	0.049	0.359	0.145	0.448
09	0.165	0.336	0.381	0.118
10	0.543	0.414	0.022	0.02
11	0.029	0.849	0.056	0.067
12	0.263	0.051	0.009	0.677
13	0.12	0.018	0.851	0.011
14	0.013	0.02	0.563	0.403
15	0.566	0.143	0.2	0.091
16	0.586	0.325	0.029	0.06
17	0.033	0.775	0.058	0.134
18	0.045	0.904	0.031	0.02
19	0.944	0.007	0.04	0.009
20	0.011	0.018	0.955	0.016
21	0.056	0.831	0.036	0.078

PWM

	A	C	G	T
01	0.16	-1.349	0.906	-2.38
02	-1.083	-0.522	-1.008	0.994
03	-0.478	-1.713	-0.124	0.84
04	-1.252	-2.058	0.961	-0.029
05	-0.961	-1.349	1.093	-0.984
06	0.287	-1.349	-0.124	0.422
07	0.015	-0.599	0.007	0.357
08	-1.576	0.357	-0.537	0.577
09	-0.41	0.293	0.416	-0.736
10	0.769	0.5	-2.29	-2.38
11	-2.058	1.213	-1.456	-1.283
12	0.049	-1.534	-3.025	0.988
13	-0.717	-2.48	1.215	-2.858
14	-2.716	-2.38	0.805	0.473
15	0.809	-0.552	-0.218	-0.984
16	0.844	0.26	-2.058	-1.383
17	-1.929	1.122	-1.419	-0.615
18	-1.665	1.276	-1.992	-2.38
19	1.319	-3.224	-1.762	-3.025
20	-2.858	-2.48	1.331	-2.591
21	-1.456	1.191	-1.871	-1.136

Standard thresholds

P-value	Threshold
0.001	2.85151
0.0005	3.96036
0.0001	6.31021