RUNX3.H12RSNP.2.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	RUNX3.H12RSNP.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	12
Consensus	nbYTGCGGTTWn
GC content	47.7%
Information content (bits; total / per base)	13.982 / 1.165
Data sources	HT-SELEX
Aligned words	9475

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)	0.926	0.938	0.843	0.86	0.888	0.904	3.044	3.139	303.745	353.076
Mouse	15 (95)	0.893	0.948	0.771	0.894	0.851	0.919	2.513	3.015	145.432	250.143

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 5 experiments	median	0.767	0.743	0.633	0.637	0.567	0.581
Non-Methyl HT-SELEX, 5 experiments	best	0.995	0.993	0.863	0.868	0.687	0.723

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	14.34	6.851	0.511	0.423

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.H12RSNP.2.S.B.pcm
PWM	RUNX3.H12RSNP.2.S.B.pwm
PFM	RUNX3.H12RSNP.2.S.B.pfm
Alignment	RUNX3.H12RSNP.2.S.B.words.tsv
Threshold to P-value map	RUNX3.H12RSNP.2.S.B.thr
Motif in other formats
JASPAR format	RUNX3.H12RSNP.2.S.B_jaspar_format.txt
MEME format	RUNX3.H12RSNP.2.S.B_meme_format.meme
Transfac format	RUNX3.H12RSNP.2.S.B_transfac_format.txt
Homer format	RUNX3.H12RSNP.2.S.B_homer_format_0.001.txt RUNX3.H12RSNP.2.S.B_homer_format_0.0005.txt RUNX3.H12RSNP.2.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1523.75	1827.75	2576.75	3546.75
02	1472.25	1679.25	1477.25	4846.25
03	644.0	1840.0	397.0	6594.0
04	35.0	172.0	11.0	9257.0
05	0.0	0.0	9475.0	0.0
06	0.0	8588.0	0.0	887.0
07	0.0	0.0	9475.0	0.0
08	0.0	0.0	9475.0	0.0
09	1.0	10.0	6.0	9458.0
10	361.0	1092.0	210.0	7812.0
11	3038.25	394.25	952.25	5090.25
12	1929.75	1904.75	2674.75	2965.75

PFM

	A	C	G	T
01	0.161	0.193	0.272	0.374
02	0.155	0.177	0.156	0.511
03	0.068	0.194	0.042	0.696
04	0.004	0.018	0.001	0.977
05	0.0	0.0	1.0	0.0
06	0.0	0.906	0.0	0.094
07	0.0	0.0	1.0	0.0
08	0.0	0.0	1.0	0.0
09	0.0	0.001	0.001	0.998
10	0.038	0.115	0.022	0.824
11	0.321	0.042	0.101	0.537
12	0.204	0.201	0.282	0.313

PWM

	A	C	G	T
01	-0.441	-0.259	0.084	0.403
02	-0.475	-0.344	-0.472	0.715
03	-1.3	-0.252	-1.781	1.023
04	-4.152	-2.61	-5.184	1.362
05	-6.943	-6.943	1.386	-6.943
06	-6.943	1.287	-6.943	-0.981
07	-6.943	-6.943	1.386	-6.943
08	-6.943	-6.943	1.386	-6.943
09	-6.58	-5.262	-5.656	1.384
10	-1.876	-0.773	-2.413	1.193
11	0.249	-1.788	-0.91	0.764
12	-0.205	-0.218	0.121	0.225

Standard thresholds

P-value	Threshold
0.001	1.519015
0.0005	3.31336
0.0001	6.94728