RUNX3.H12INVITRO.2.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	RUNX3.H12INVITRO.2.S.B
Gene (human)	RUNX3 (GeneCards)
Gene synonyms (human)	AML2, CBFA3, PEBP2A3
Gene (mouse)	Runx3
Gene synonyms (mouse)	Aml2, Cbfa3, Pebp2a3
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	B

Motif length	11
Consensus	nYTGCGGTYdn
GC content	49.06%
Information content (bits; total / per base)	12.724 / 1.157
Data sources	HT-SELEX
Aligned words	6921

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	1 (7)	0.911	0.925	0.834	0.852	0.888	0.906	3.055	3.185	331.244	388.456
Mouse	15 (95)	0.875	0.946	0.766	0.884	0.85	0.918	2.528	3.054	166.268	270.638

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 5 experiments	median	0.772	0.746	0.64	0.641	0.573	0.584
Non-Methyl HT-SELEX, 5 experiments	best	0.995	0.993	0.867	0.871	0.693	0.726

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	14.038	6.798	0.507	0.432

TF superclass	Immunoglobulin fold {6} (TFClass)
TF class	Runt domain factors {6.4} (TFClass)
TF family	Runt-related {6.4.1} (TFClass)
TF subfamily	{6.4.1.0} (TFClass)
TFClass ID	TFClass: 6.4.1.0.3
HGNC	HGNC:10473
MGI	MGI:102672
EntrezGene (human)	GeneID:864 (SSTAR profile)
EntrezGene (mouse)
UniProt ID (human)	RUNX3_HUMAN
UniProt ID (mouse)	RUNX3_MOUSE
UniProt AC (human)	Q13761 (TFClass)
UniProt AC (mouse)	Q64131 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 15 mouse
HT-SELEX	5
Methyl-HT-SELEX	0

PCM	RUNX3.H12INVITRO.2.S.B.pcm
PWM	RUNX3.H12INVITRO.2.S.B.pwm
PFM	RUNX3.H12INVITRO.2.S.B.pfm
Alignment	RUNX3.H12INVITRO.2.S.B.words.tsv
Threshold to P-value map	RUNX3.H12INVITRO.2.S.B.thr
Motif in other formats
JASPAR format	RUNX3.H12INVITRO.2.S.B_jaspar_format.txt
MEME format	RUNX3.H12INVITRO.2.S.B_meme_format.meme
Transfac format	RUNX3.H12INVITRO.2.S.B_transfac_format.txt
Homer format	RUNX3.H12INVITRO.2.S.B_homer_format_0.001.txt RUNX3.H12INVITRO.2.S.B_homer_format_0.0005.txt RUNX3.H12INVITRO.2.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1311.25	1486.25	1361.25	2762.25
02	769.25	1429.25	533.25	4189.25
03	60.0	199.0	10.0	6652.0
04	0.0	0.0	6921.0	0.0
05	0.0	5575.0	0.0	1346.0
06	0.0	0.0	6921.0	0.0
07	0.0	0.0	6921.0	0.0
08	0.0	0.0	0.0	6921.0
09	414.0	954.0	371.0	5182.0
10	2386.5	428.5	888.5	3217.5
11	1555.0	1296.0	2058.0	2012.0

PFM

	A	C	G	T
01	0.189	0.215	0.197	0.399
02	0.111	0.207	0.077	0.605
03	0.009	0.029	0.001	0.961
04	0.0	0.0	1.0	0.0
05	0.0	0.806	0.0	0.194
06	0.0	0.0	1.0	0.0
07	0.0	0.0	1.0	0.0
08	0.0	0.0	0.0	1.0
09	0.06	0.138	0.054	0.749
10	0.345	0.062	0.128	0.465
11	0.225	0.187	0.297	0.291

PWM

	A	C	G	T
01	-0.277	-0.152	-0.24	0.467
02	-0.809	-0.191	-1.174	0.884
03	-3.327	-2.153	-4.955	1.346
04	-6.664	-6.664	1.385	-6.664
05	-6.664	1.169	-6.664	-0.251
06	-6.664	-6.664	1.385	-6.664
07	-6.664	-6.664	1.385	-6.664
08	-6.664	-6.664	-6.664	1.385
09	-1.426	-0.594	-1.535	1.096
10	0.321	-1.392	-0.665	0.62
11	-0.107	-0.289	0.173	0.151

Standard thresholds

P-value	Threshold
0.001	2.29188
0.0005	4.392505
0.0001	7.529035