THA.H12INVIVO.2.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	THA.H12INVIVO.2.S.B
Gene (human)	THRA (GeneCards)
Gene synonyms (human)	EAR7, ERBA1, NR1A1, THRA1, THRA2
Gene (mouse)	Thra
Gene synonyms (mouse)	C-erba-alpha, Nr1a1
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	B

Motif length	16
Consensus	dMCYbRTRAGGTCAhv
GC content	47.36%
Information content (bits; total / per base)	18.012 / 1.126
Data sources	HT-SELEX
Aligned words	1363

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 (6)	0.78	0.822	0.597	0.645	0.726	0.777	1.985	2.255	20.523	72.337
Mouse	2 (12)	0.752	0.771	0.575	0.596	0.672	0.687	1.647	1.769	56.7	80.678

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.778	0.779	0.63	0.65	0.557	0.584
Non-Methyl HT-SELEX, 2 experiments	best	0.851	0.849	0.67	0.692	0.577	0.609

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	Nuclear receptors with C4 zinc fingers {2.1} (TFClass)
TF family	Thyroid hormone receptor-related {2.1.2} (TFClass)
TF subfamily	T3R (NR1A) {2.1.2.2} (TFClass)
TFClass ID	TFClass: 2.1.2.2.1
HGNC	HGNC:11796
MGI	MGI:98742
EntrezGene (human)	GeneID:7067 (SSTAR profile)
EntrezGene (mouse)	GeneID:21833 (SSTAR profile)
UniProt ID (human)	THA_HUMAN
UniProt ID (mouse)	THA_MOUSE
UniProt AC (human)	P10827 (TFClass)
UniProt AC (mouse)	P63058 (TFClass)
GRECO-DB-TF	yes

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

PCM	THA.H12INVIVO.2.S.B.pcm
PWM	THA.H12INVIVO.2.S.B.pwm
PFM	THA.H12INVIVO.2.S.B.pfm
Alignment	THA.H12INVIVO.2.S.B.words.tsv
Threshold to P-value map	THA.H12INVIVO.2.S.B.thr
Motif in other formats
JASPAR format	THA.H12INVIVO.2.S.B_jaspar_format.txt
MEME format	THA.H12INVIVO.2.S.B_meme_format.meme
Transfac format	THA.H12INVIVO.2.S.B_transfac_format.txt
Homer format	THA.H12INVIVO.2.S.B_homer_format_0.001.txt THA.H12INVIVO.2.S.B_homer_format_0.0005.txt THA.H12INVIVO.2.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	700.0	137.0	143.0	383.0
02	111.75	1091.75	64.75	94.75
03	114.0	1131.0	51.0	67.0
04	82.0	284.0	49.0	948.0
05	105.0	482.0	253.0	523.0
06	827.0	101.0	276.0	159.0
07	4.0	119.0	7.0	1233.0
08	874.0	69.0	408.0	12.0
09	1357.0	0.0	6.0	0.0
10	0.0	0.0	1363.0	0.0
11	0.0	0.0	1363.0	0.0
12	41.0	0.0	0.0	1322.0
13	1.0	1358.0	2.0	2.0
14	1335.0	1.0	27.0	0.0
15	253.25	601.25	81.25	427.25
16	289.5	288.5	570.5	214.5

PFM

	A	C	G	T
01	0.514	0.101	0.105	0.281
02	0.082	0.801	0.048	0.07
03	0.084	0.83	0.037	0.049
04	0.06	0.208	0.036	0.696
05	0.077	0.354	0.186	0.384
06	0.607	0.074	0.202	0.117
07	0.003	0.087	0.005	0.905
08	0.641	0.051	0.299	0.009
09	0.996	0.0	0.004	0.0
10	0.0	0.0	1.0	0.0
11	0.0	0.0	1.0	0.0
12	0.03	0.0	0.0	0.97
13	0.001	0.996	0.001	0.001
14	0.979	0.001	0.02	0.0
15	0.186	0.441	0.06	0.313
16	0.212	0.212	0.419	0.157

PWM

	A	C	G	T
01	0.717	-0.903	-0.861	0.116
02	-1.104	1.161	-1.638	-1.266
03	-1.085	1.196	-1.87	-1.605
04	-1.408	-0.181	-1.908	1.02
05	-1.165	0.345	-0.296	0.427
06	0.884	-1.204	-0.21	-0.756
07	-4.078	-1.042	-3.661	1.282
08	0.939	-1.577	0.179	-3.211
09	1.378	-5.246	-3.782	-5.246
10	-5.246	-5.246	1.382	-5.246
11	-5.246	-5.246	1.382	-5.246
12	-2.08	-5.246	-5.246	1.352
13	-4.805	1.379	-4.5	-4.5
14	1.362	-4.805	-2.476	-5.246
15	-0.295	0.566	-1.417	0.225
16	-0.162	-0.166	0.513	-0.46

Standard thresholds

P-value	Threshold
0.001	0.22606
0.0005	1.81101
0.0001	5.10651