TBX19.H12RSNP.1.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBX19.H12RSNP.1.SM.D
Gene (human)	TBX19 (GeneCards)
Gene synonyms (human)	TPIT
Gene (mouse)	Tbx19
Gene synonyms (mouse)	Tpit
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	13
Consensus	dAGGTGYKAhddh
GC content	41.55%
Information content (bits; total / per base)	13.141 / 1.011
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9850

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	2 (9)	0.733	0.755	0.571	0.604	0.677	0.687	1.753	1.805	66.337	70.137

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.995	0.992	0.988	0.982	0.944	0.939
Overall, 4 experiments	best	0.998	0.997	0.995	0.993	0.99	0.985
Methyl HT-SELEX, 1 experiments	median	0.996	0.992	0.993	0.988	0.985	0.978
Methyl HT-SELEX, 1 experiments	best	0.996	0.992	0.993	0.988	0.985	0.978
Non-Methyl HT-SELEX, 3 experiments	median	0.994	0.992	0.983	0.977	0.903	0.899
Non-Methyl HT-SELEX, 3 experiments	best	0.998	0.997	0.995	0.993	0.99	0.985

TF superclass	Immunoglobulin fold {6} (TFClass)
TF class	T-Box factors {6.5} (TFClass)
TF family	Brachyury-related {6.5.1} (TFClass)
TF subfamily	{6.5.1.0} (TFClass)
TFClass ID	TFClass: 6.5.1.0.2
HGNC	HGNC:11596
MGI	MGI:1891158
EntrezGene (human)	GeneID:9095 (SSTAR profile)
EntrezGene (mouse)	GeneID:83993 (SSTAR profile)
UniProt ID (human)	TBX19_HUMAN
UniProt ID (mouse)	TBX19_MOUSE
UniProt AC (human)	O60806 (TFClass)
UniProt AC (mouse)	Q99ME7 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 2 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	TBX19.H12RSNP.1.SM.D.pcm
PWM	TBX19.H12RSNP.1.SM.D.pwm
PFM	TBX19.H12RSNP.1.SM.D.pfm
Alignment	TBX19.H12RSNP.1.SM.D.words.tsv
Threshold to P-value map	TBX19.H12RSNP.1.SM.D.thr
Motif in other formats
JASPAR format	TBX19.H12RSNP.1.SM.D_jaspar_format.txt
MEME format	TBX19.H12RSNP.1.SM.D_meme_format.meme
Transfac format	TBX19.H12RSNP.1.SM.D_transfac_format.txt
Homer format	TBX19.H12RSNP.1.SM.D_homer_format_0.001.txt TBX19.H12RSNP.1.SM.D_homer_format_0.0005.txt TBX19.H12RSNP.1.SM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3372.25	996.25	2394.25	3087.25
02	9111.75	58.75	538.75	140.75
03	468.0	765.0	8164.0	453.0
04	100.0	3.0	9739.0	8.0
05	0.0	399.0	5.0	9446.0
06	0.0	0.0	9850.0	0.0
07	455.0	2465.0	36.0	6894.0
08	85.0	637.0	6946.0	2182.0
09	9714.0	3.0	128.0	5.0
10	5336.0	1387.0	1037.0	2090.0
11	4569.0	859.0	1363.0	3059.0
12	2262.25	744.25	1423.25	5420.25
13	1722.75	1690.75	1576.75	4859.75

PFM

	A	C	G	T
01	0.342	0.101	0.243	0.313
02	0.925	0.006	0.055	0.014
03	0.048	0.078	0.829	0.046
04	0.01	0.0	0.989	0.001
05	0.0	0.041	0.001	0.959
06	0.0	0.0	1.0	0.0
07	0.046	0.25	0.004	0.7
08	0.009	0.065	0.705	0.222
09	0.986	0.0	0.013	0.001
10	0.542	0.141	0.105	0.212
11	0.464	0.087	0.138	0.311
12	0.23	0.076	0.144	0.55
13	0.175	0.172	0.16	0.493

PWM

	A	C	G	T
01	0.314	-0.904	-0.028	0.226
02	1.308	-3.698	-1.516	-2.847
03	-1.656	-1.167	1.198	-1.689
04	-3.182	-6.142	1.374	-5.478
05	-6.977	-1.815	-5.822	1.344
06	-6.977	-6.977	1.386	-6.977
07	-1.685	0.001	-4.164	1.029
08	-3.341	-1.349	1.036	-0.121
09	1.372	-6.142	-2.94	-5.822
10	0.773	-0.573	-0.864	-0.164
11	0.618	-1.051	-0.591	0.217
12	-0.085	-1.194	-0.548	0.788
13	-0.357	-0.376	-0.445	0.679

Standard thresholds

P-value	Threshold
0.001	3.31106
0.0005	4.61996
0.0001	7.121235