ZN140.H12RSNP.1.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ZN140.H12RSNP.1.SM.D
Gene (human)	ZNF140 (GeneCards)
Gene synonyms (human)
Gene (mouse)
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	15
Consensus	nhRCAATTCCGCTCn
GC content	52.09%
Information content (bits; total / per base)	19.159 / 1.277
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	1155

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
Human	2 (11)	0.726	0.907	0.702	0.896	0.722	0.905	4.234	6.584	154.347	413.114

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.735	0.758	0.598	0.629	0.543	0.571
Overall, 2 experiments	best	0.784	0.809	0.614	0.653	0.546	0.583
Methyl HT-SELEX, 1 experiments	median	0.784	0.809	0.614	0.653	0.546	0.583
Methyl HT-SELEX, 1 experiments	best	0.784	0.809	0.614	0.653	0.546	0.583
Non-Methyl HT-SELEX, 1 experiments	median	0.686	0.708	0.582	0.605	0.541	0.56
Non-Methyl HT-SELEX, 1 experiments	best	0.686	0.708	0.582	0.605	0.541	0.56

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	ZNF302-like {2.3.3.44} (TFClass)
TFClass ID	TFClass: 2.3.3.44.4
HGNC	HGNC:12925
MGI
EntrezGene (human)	GeneID:7699 (SSTAR profile)
EntrezGene (mouse)
UniProt ID (human)	ZN140_HUMAN
UniProt ID (mouse)
UniProt AC (human)	P52738 (TFClass)
UniProt AC (mouse)
GRECO-DB-TF	yes

ChIP-Seq	2 human, 0 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

PCM	ZN140.H12RSNP.1.SM.D.pcm
PWM	ZN140.H12RSNP.1.SM.D.pwm
PFM	ZN140.H12RSNP.1.SM.D.pfm
Alignment	ZN140.H12RSNP.1.SM.D.words.tsv
Threshold to P-value map	ZN140.H12RSNP.1.SM.D.thr
Motif in other formats
JASPAR format	ZN140.H12RSNP.1.SM.D_jaspar_format.txt
MEME format	ZN140.H12RSNP.1.SM.D_meme_format.meme
Transfac format	ZN140.H12RSNP.1.SM.D_transfac_format.txt
Homer format	ZN140.H12RSNP.1.SM.D_homer_format_0.001.txt ZN140.H12RSNP.1.SM.D_homer_format_0.0005.txt ZN140.H12RSNP.1.SM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	231.0	321.0	237.0	366.0
02	484.75	189.75	104.75	375.75
03	364.0	58.0	716.0	17.0
04	8.0	1134.0	8.0	5.0
05	1088.0	19.0	7.0	41.0
06	1127.0	13.0	14.0	1.0
07	0.0	2.0	0.0	1153.0
08	0.0	1.0	0.0	1154.0
09	4.0	1147.0	1.0	3.0
10	4.0	1134.0	1.0	16.0
11	28.0	48.0	1068.0	11.0
12	43.0	1045.0	6.0	61.0
13	27.0	90.0	88.0	950.0
14	52.75	966.75	49.75	85.75
15	391.5	348.5	206.5	208.5

PFM

	A	C	G	T
01	0.2	0.278	0.205	0.317
02	0.42	0.164	0.091	0.325
03	0.315	0.05	0.62	0.015
04	0.007	0.982	0.007	0.004
05	0.942	0.016	0.006	0.035
06	0.976	0.011	0.012	0.001
07	0.0	0.002	0.0	0.998
08	0.0	0.001	0.0	0.999
09	0.003	0.993	0.001	0.003
10	0.003	0.982	0.001	0.014
11	0.024	0.042	0.925	0.01
12	0.037	0.905	0.005	0.053
13	0.023	0.078	0.076	0.823
14	0.046	0.837	0.043	0.074
15	0.339	0.302	0.179	0.181

PWM

	A	C	G	T
01	-0.222	0.105	-0.196	0.236
02	0.516	-0.417	-1.003	0.262
03	0.23	-1.581	0.904	-2.74
04	-3.393	1.363	-3.393	-3.76
05	1.322	-2.638	-3.501	-1.916
06	1.357	-2.98	-2.914	-4.655
07	-5.105	-4.346	-5.105	1.38
08	-5.105	-4.655	-5.105	1.381
09	-3.92	1.375	-4.655	-4.111
10	-3.92	1.363	-4.655	-2.795
11	-2.278	-1.764	1.304	-3.125
12	-1.87	1.282	-3.622	-1.532
13	-2.313	-1.152	-1.174	1.187
14	-1.673	1.204	-1.73	-1.2
15	0.303	0.187	-0.333	-0.323

Standard thresholds

P-value	Threshold
0.001	-0.06749
0.0005	1.45786
0.0001	4.67931