TBR1.H13INVITRO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBR1.H13INVITRO.0.PS.A
Gene (human)	TBR1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Tbr1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	18
Consensus	hbbnnndAGGTGTGAWdd
GC content	47.83%
Information content (bits; total / per base)	16.109 / 0.895
Data sources	ChIP-Seq + HT-SELEX
Aligned words	449
Previous names	TBR1.H12INVITRO.0.PS.A

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 (14)	0.618	0.648	0.521	0.546	0.632	0.652	1.781	1.882	39.178	57.222

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 4 experiments	median	0.79	0.779	0.747	0.735	0.667	0.667
Non-Methyl HT-SELEX, 4 experiments	best	0.999	0.999	0.996	0.995	0.946	0.946

TF superclass	Immunoglobulin fold {6} (TFClass)
TF class	T-Box factors {6.5} (TFClass)
TF family	TBrain-related {6.5.2} (TFClass)
TF subfamily	{6.5.2.0} (TFClass)
TFClass ID	TFClass: 6.5.2.0.1
HGNC	HGNC:11590
MGI	MGI:107404
EntrezGene (human)	GeneID:10716 (SSTAR profile)
EntrezGene (mouse)	GeneID:21375 (SSTAR profile)
UniProt ID (human)	TBR1_HUMAN
UniProt ID (mouse)	TBR1_MOUSE
UniProt AC (human)	Q16650 (TFClass)
UniProt AC (mouse)	Q64336 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 2 mouse
HT-SELEX	4
Methyl-HT-SELEX	0
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	TBR1.H13INVITRO.0.PS.A.pcm
PWM	TBR1.H13INVITRO.0.PS.A.pwm
PFM	TBR1.H13INVITRO.0.PS.A.pfm
Threshold to P-value map	TBR1.H13INVITRO.0.PS.A.thr
Motif in other formats
JASPAR format	TBR1.H13INVITRO.0.PS.A_jaspar_format.txt
MEME format	TBR1.H13INVITRO.0.PS.A_meme_format.meme
Transfac format	TBR1.H13INVITRO.0.PS.A_transfac_format.txt
Homer format	TBR1.H13INVITRO.0.PS.A_homer_format_0.001.txt TBR1.H13INVITRO.0.PS.A_homer_format_0.0005.txt TBR1.H13INVITRO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	80.0	207.0	77.0	85.0
02	69.0	194.0	81.0	105.0
03	56.0	159.0	93.0	141.0
04	60.0	113.0	115.0	161.0
05	86.0	112.0	145.0	106.0
06	162.0	108.0	102.0	77.0
07	204.0	26.0	164.0	55.0
08	432.0	1.0	16.0	0.0
09	2.0	1.0	440.0	6.0
10	1.0	0.0	448.0	0.0
11	0.0	2.0	0.0	447.0
12	0.0	0.0	449.0	0.0
13	2.0	26.0	0.0	421.0
14	3.0	9.0	399.0	38.0
15	432.0	2.0	4.0	11.0
16	303.0	31.0	45.0	70.0
17	235.5	57.5	87.5	68.5
18	183.5	71.5	80.5	113.5

PFM

	A	C	G	T
01	0.178	0.461	0.171	0.189
02	0.154	0.432	0.18	0.234
03	0.125	0.354	0.207	0.314
04	0.134	0.252	0.256	0.359
05	0.192	0.249	0.323	0.236
06	0.361	0.241	0.227	0.171
07	0.454	0.058	0.365	0.122
08	0.962	0.002	0.036	0.0
09	0.004	0.002	0.98	0.013
10	0.002	0.0	0.998	0.0
11	0.0	0.004	0.0	0.996
12	0.0	0.0	1.0	0.0
13	0.004	0.058	0.0	0.938
14	0.007	0.02	0.889	0.085
15	0.962	0.004	0.009	0.024
16	0.675	0.069	0.1	0.156
17	0.524	0.128	0.195	0.153
18	0.409	0.159	0.179	0.253

PWM

	A	C	G	T
01	-0.333	0.606	-0.371	-0.274
02	-0.478	0.541	-0.321	-0.066
03	-0.682	0.344	-0.185	0.225
04	-0.615	0.007	0.024	0.357
05	-0.262	-0.002	0.253	-0.056
06	0.363	-0.038	-0.094	-0.371
07	0.591	-1.419	0.375	-0.7
08	1.338	-3.807	-1.871	-4.311
09	-3.474	-3.807	1.356	-2.716
10	-3.807	-4.311	1.374	-4.311
11	-4.311	-3.474	-4.311	1.372
12	-4.311	-4.311	1.376	-4.311
13	-3.474	-1.419	-4.311	1.312
14	-3.224	-2.38	1.259	-1.057
15	1.338	-3.474	-3.025	-2.206
16	0.985	-1.252	-0.894	-0.464
17	0.734	-0.656	-0.245	-0.485
18	0.486	-0.443	-0.327	0.011

Standard thresholds

P-value	Threshold
0.001	2.07731
0.0005	3.42666
0.0001	6.21101