ZIC3.H12INVITRO.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ZIC3.H12INVITRO.0.P.B
Gene (human)	ZIC3 (GeneCards)
Gene synonyms (human)	ZNF203
Gene (mouse)	Zic3
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	15
Consensus	dChCAGCRGGdddbh
GC content	65.4%
Information content (bits; total / per base)	13.17 / 0.878
Data sources	ChIP-Seq
Aligned words	1000

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	pseudo-log-auROC, median	pseudo-log-auROC, best	Centrality, median	Centrality, best
Mouse	4 (27)	0.899	0.937	0.792	0.876	0.832	0.924	2.649	3.887	97.538	315.569

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.731	0.752	0.604	0.627	0.549	0.57
Overall, 6 experiments	best	1.0	0.999	0.998	0.998	0.994	0.992
Methyl HT-SELEX, 2 experiments	median	0.807	0.821	0.771	0.783	0.756	0.764
Methyl HT-SELEX, 2 experiments	best	1.0	0.999	0.998	0.998	0.994	0.992
Non-Methyl HT-SELEX, 4 experiments	median	0.731	0.752	0.604	0.627	0.549	0.57
Non-Methyl HT-SELEX, 4 experiments	best	0.998	0.996	0.995	0.992	0.982	0.977

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.804	0.053	0.742	0.411
batch 2	0.778	0.369	0.493	0.352

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	GLI-lile {2.3.3.1} (TFClass)
TFClass ID	TFClass: 2.3.3.1.9
HGNC	HGNC:12874
MGI	MGI:106676
EntrezGene (human)	GeneID:7547 (SSTAR profile)
EntrezGene (mouse)	GeneID:22773 (SSTAR profile)
UniProt ID (human)	ZIC3_HUMAN
UniProt ID (mouse)	ZIC3_MOUSE
UniProt AC (human)	O60481 (TFClass)
UniProt AC (mouse)	Q62521 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 4 mouse
HT-SELEX	4
Methyl-HT-SELEX	2

PCM	ZIC3.H12INVITRO.0.P.B.pcm
PWM	ZIC3.H12INVITRO.0.P.B.pwm
PFM	ZIC3.H12INVITRO.0.P.B.pfm
Alignment	ZIC3.H12INVITRO.0.P.B.words.tsv
Threshold to P-value map	ZIC3.H12INVITRO.0.P.B.thr
Motif in other formats
JASPAR format	ZIC3.H12INVITRO.0.P.B_jaspar_format.txt
MEME format	ZIC3.H12INVITRO.0.P.B_meme_format.meme
Transfac format	ZIC3.H12INVITRO.0.P.B_transfac_format.txt
Homer format	ZIC3.H12INVITRO.0.P.B_homer_format_0.001.txt ZIC3.H12INVITRO.0.P.B_homer_format_0.0005.txt ZIC3.H12INVITRO.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	176.0	107.0	340.0	377.0
02	55.0	890.0	48.0	7.0
03	343.0	242.0	80.0	335.0
04	5.0	980.0	4.0	11.0
05	844.0	66.0	20.0	70.0
06	28.0	72.0	899.0	1.0
07	5.0	912.0	14.0	69.0
08	716.0	4.0	208.0	72.0
09	22.0	2.0	919.0	57.0
10	0.0	7.0	990.0	3.0
11	321.0	69.0	390.0	220.0
12	326.0	78.0	502.0	94.0
13	166.0	133.0	549.0	152.0
14	55.0	511.0	210.0	224.0
15	266.0	412.0	152.0	170.0

PFM

	A	C	G	T
01	0.176	0.107	0.34	0.377
02	0.055	0.89	0.048	0.007
03	0.343	0.242	0.08	0.335
04	0.005	0.98	0.004	0.011
05	0.844	0.066	0.02	0.07
06	0.028	0.072	0.899	0.001
07	0.005	0.912	0.014	0.069
08	0.716	0.004	0.208	0.072
09	0.022	0.002	0.919	0.057
10	0.0	0.007	0.99	0.003
11	0.321	0.069	0.39	0.22
12	0.326	0.078	0.502	0.094
13	0.166	0.133	0.549	0.152
14	0.055	0.511	0.21	0.224
15	0.266	0.412	0.152	0.17

PWM

	A	C	G	T
01	-0.348	-0.84	0.306	0.408
02	-1.49	1.265	-1.622	-3.362
03	0.314	-0.032	-1.125	0.291
04	-3.622	1.361	-3.783	-2.985
05	1.212	-1.313	-2.45	-1.255
06	-2.136	-1.228	1.275	-4.525
07	-3.622	1.289	-2.773	-1.27
08	1.048	-3.783	-0.183	-1.228
09	-2.362	-4.213	1.297	-1.455
10	-4.982	-3.362	1.371	-3.975
11	0.248	-1.27	0.442	-0.127
12	0.264	-1.15	0.694	-0.967
13	-0.406	-0.625	0.783	-0.493
14	-1.49	0.711	-0.173	-0.109
15	0.062	0.497	-0.493	-0.382

Standard thresholds

P-value	Threshold
0.001	3.71666
0.0005	4.79806
0.0001	7.02026