RUNX3.H12INVIVO.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	RUNX3.H12INVIVO.1.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	1
Quality	B

Motif length	19
Consensus	nbYTGCGGTTTbbSSKKKb
GC content	51.77%
Information content (bits; total / per base)	18.909 / 0.995
Data sources	HT-SELEX
Aligned words	1490

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)	0.894	0.908	0.799	0.818	0.826	0.832	2.824	2.889	176.284	202.347
Mouse	15 (95)	0.873	0.916	0.752	0.843	0.806	0.884	2.485	3.0	82.721	170.824

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 5 experiments	median	0.733	0.72	0.615	0.621	0.558	0.571
Non-Methyl HT-SELEX, 5 experiments	best	0.992	0.992	0.832	0.843	0.664	0.705

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	11.784	5.849	0.499	0.388

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.H12INVIVO.1.S.B.pcm
PWM	RUNX3.H12INVIVO.1.S.B.pwm
PFM	RUNX3.H12INVIVO.1.S.B.pfm
Alignment	RUNX3.H12INVIVO.1.S.B.words.tsv
Threshold to P-value map	RUNX3.H12INVIVO.1.S.B.thr
Motif in other formats
JASPAR format	RUNX3.H12INVIVO.1.S.B_jaspar_format.txt
MEME format	RUNX3.H12INVIVO.1.S.B_meme_format.meme
Transfac format	RUNX3.H12INVIVO.1.S.B_transfac_format.txt
Homer format	RUNX3.H12INVIVO.1.S.B_homer_format_0.001.txt RUNX3.H12INVIVO.1.S.B_homer_format_0.0005.txt RUNX3.H12INVIVO.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	280.0	379.0	359.0	472.0
02	247.75	335.75	250.75	655.75
03	106.0	298.0	98.0	988.0
04	2.0	24.0	1.0	1463.0
05	0.0	0.0	1490.0	0.0
06	1.0	1372.0	0.0	117.0
07	0.0	0.0	1490.0	0.0
08	0.0	0.0	1490.0	0.0
09	0.0	0.0	3.0	1487.0
10	22.0	69.0	7.0	1392.0
11	237.0	42.0	19.0	1192.0
12	91.0	180.0	522.0	697.0
13	32.0	471.0	382.0	605.0
14	25.0	319.0	994.0	152.0
15	17.0	516.0	837.0	120.0
16	7.0	85.0	940.0	458.0
17	45.0	111.0	664.0	670.0
18	163.5	129.5	216.5	980.5
19	220.25	282.25	279.25	708.25

PFM

	A	C	G	T
01	0.188	0.254	0.241	0.317
02	0.166	0.225	0.168	0.44
03	0.071	0.2	0.066	0.663
04	0.001	0.016	0.001	0.982
05	0.0	0.0	1.0	0.0
06	0.001	0.921	0.0	0.079
07	0.0	0.0	1.0	0.0
08	0.0	0.0	1.0	0.0
09	0.0	0.0	0.002	0.998
10	0.015	0.046	0.005	0.934
11	0.159	0.028	0.013	0.8
12	0.061	0.121	0.35	0.468
13	0.021	0.316	0.256	0.406
14	0.017	0.214	0.667	0.102
15	0.011	0.346	0.562	0.081
16	0.005	0.057	0.631	0.307
17	0.03	0.074	0.446	0.45
18	0.11	0.087	0.145	0.658
19	0.148	0.189	0.187	0.475

PWM

	A	C	G	T
01	-0.284	0.017	-0.037	0.236
02	-0.405	-0.103	-0.393	0.563
03	-1.245	-0.222	-1.322	0.972
04	-4.583	-2.674	-4.886	1.364
05	-5.323	-5.323	1.383	-5.323
06	-4.886	1.3	-5.323	-1.147
07	-5.323	-5.323	1.383	-5.323
08	-5.323	-5.323	1.383	-5.323
09	-5.323	-5.323	-4.351	1.381
10	-2.754	-1.665	-3.747	1.315
11	-0.449	-2.145	-2.889	1.16
12	-1.394	-0.722	0.336	0.624
13	-2.404	0.234	0.025	0.483
14	-2.636	-0.154	0.978	-0.889
15	-2.99	0.325	0.807	-1.123
16	-3.747	-1.461	0.923	0.206
17	-2.079	-1.199	0.576	0.585
18	-0.817	-1.047	-0.539	0.965
19	-0.522	-0.276	-0.287	0.64

Standard thresholds

P-value	Threshold
0.001	-0.52174
0.0005	1.13751
0.0001	4.59996