TBX19.H12INVITRO.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBX19.H12INVITRO.1.SM.B
Gene (human)	TBX19 (GeneCards)
Gene synonyms (human)	TPIT
Gene (mouse)	Tbx19
Gene synonyms (mouse)	Tpit
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	13
Consensus	dASGTGYKAhddh
GC content	42.06%
Information content (bits; total / per base)	12.472 / 0.959
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9735

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	0.572	0.604	0.676	0.685	1.745	1.795	68.569	74.585

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.995	0.992	0.988	0.983	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.H12INVITRO.1.SM.B.pcm
PWM	TBX19.H12INVITRO.1.SM.B.pwm
PFM	TBX19.H12INVITRO.1.SM.B.pfm
Alignment	TBX19.H12INVITRO.1.SM.B.words.tsv
Threshold to P-value map	TBX19.H12INVITRO.1.SM.B.thr
Motif in other formats
JASPAR format	TBX19.H12INVITRO.1.SM.B_jaspar_format.txt
MEME format	TBX19.H12INVITRO.1.SM.B_meme_format.meme
Transfac format	TBX19.H12INVITRO.1.SM.B_transfac_format.txt
Homer format	TBX19.H12INVITRO.1.SM.B_homer_format_0.001.txt TBX19.H12INVITRO.1.SM.B_homer_format_0.0005.txt TBX19.H12INVITRO.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3265.75	1162.75	2412.75	2893.75
02	8843.25	71.25	604.25	216.25
03	514.0	860.0	7832.0	529.0
04	140.0	5.0	9579.0	11.0
05	0.0	452.0	4.0	9279.0
06	0.0	0.0	9734.0	1.0
07	583.0	2223.0	40.0	6889.0
08	130.0	918.0	6545.0	2142.0
09	9460.0	14.0	232.0	29.0
10	4938.0	1538.0	1102.0	2157.0
11	4415.0	904.0	1368.0	3048.0
12	2458.5	857.5	1406.5	5012.5
13	1773.75	1698.75	1662.75	4599.75

PFM

	A	C	G	T
01	0.335	0.119	0.248	0.297
02	0.908	0.007	0.062	0.022
03	0.053	0.088	0.805	0.054
04	0.014	0.001	0.984	0.001
05	0.0	0.046	0.0	0.953
06	0.0	0.0	1.0	0.0
07	0.06	0.228	0.004	0.708
08	0.013	0.094	0.672	0.22
09	0.972	0.001	0.024	0.003
10	0.507	0.158	0.113	0.222
11	0.454	0.093	0.141	0.313
12	0.253	0.088	0.144	0.515
13	0.182	0.174	0.171	0.472

PWM

	A	C	G	T
01	0.294	-0.738	-0.009	0.173
02	1.29	-3.5	-1.39	-2.411
03	-1.551	-1.039	1.168	-1.523
04	-2.84	-5.811	1.369	-5.211
05	-6.967	-1.679	-5.958	1.338
06	-6.967	-6.967	1.385	-6.605
07	-1.426	-0.09	-4.053	1.04
08	-2.913	-0.973	0.989	-0.128
09	1.357	-5.007	-2.342	-4.355
10	0.707	-0.458	-0.791	-0.121
11	0.595	-0.989	-0.575	0.225
12	0.01	-1.041	-0.548	0.722
13	-0.316	-0.359	-0.381	0.636

Standard thresholds

P-value	Threshold
0.001	3.75871
0.0005	4.96081
0.0001	7.25767