THA.H12INVITRO.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	THA.H12INVITRO.0.P.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	0
Quality	B

Motif length	18
Consensus	vRRKKSRnnYRRGGWSAb
GC content	53.86%
Information content (bits; total / per base)	11.773 / 0.654
Data sources	ChIP-Seq
Aligned words	154

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)	0.912	0.959	0.864	0.917	0.944	0.982	5.738	7.194	73.509	262.409
Mouse	2 (12)	0.905	0.932	0.854	0.874	0.901	0.924	4.139	4.302	356.03	410.824

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.671	0.639	0.594	0.584	0.546	0.55
Non-Methyl HT-SELEX, 2 experiments	best	0.725	0.683	0.629	0.613	0.565	0.569

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.H12INVITRO.0.P.B.pcm
PWM	THA.H12INVITRO.0.P.B.pwm
PFM	THA.H12INVITRO.0.P.B.pfm
Alignment	THA.H12INVITRO.0.P.B.words.tsv
Threshold to P-value map	THA.H12INVITRO.0.P.B.thr
Motif in other formats
JASPAR format	THA.H12INVITRO.0.P.B_jaspar_format.txt
MEME format	THA.H12INVITRO.0.P.B_meme_format.meme
Transfac format	THA.H12INVITRO.0.P.B_transfac_format.txt
Homer format	THA.H12INVITRO.0.P.B_homer_format_0.001.txt THA.H12INVITRO.0.P.B_homer_format_0.0005.txt THA.H12INVITRO.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	70.0	24.0	40.0	20.0
02	74.0	5.0	63.0	12.0
03	14.0	5.0	122.0	13.0
04	11.0	6.0	116.0	21.0
05	6.0	26.0	29.0	93.0
06	14.0	97.0	22.0	21.0
07	108.0	10.0	20.0	16.0
08	27.0	34.0	39.0	54.0
09	34.0	47.0	45.0	28.0
10	11.0	29.0	4.0	110.0
11	32.0	18.0	92.0	12.0
12	115.0	7.0	30.0	2.0
13	9.0	1.0	135.0	9.0
14	8.0	0.0	142.0	4.0
15	63.0	21.0	3.0	67.0
16	7.0	120.0	16.0	11.0
17	124.0	2.0	17.0	11.0
18	18.0	69.0	37.0	30.0

PFM

	A	C	G	T
01	0.455	0.156	0.26	0.13
02	0.481	0.032	0.409	0.078
03	0.091	0.032	0.792	0.084
04	0.071	0.039	0.753	0.136
05	0.039	0.169	0.188	0.604
06	0.091	0.63	0.143	0.136
07	0.701	0.065	0.13	0.104
08	0.175	0.221	0.253	0.351
09	0.221	0.305	0.292	0.182
10	0.071	0.188	0.026	0.714
11	0.208	0.117	0.597	0.078
12	0.747	0.045	0.195	0.013
13	0.058	0.006	0.877	0.058
14	0.052	0.0	0.922	0.026
15	0.409	0.136	0.019	0.435
16	0.045	0.779	0.104	0.071
17	0.805	0.013	0.11	0.071
18	0.117	0.448	0.24	0.195

PWM

	A	C	G	T
01	0.583	-0.454	0.037	-0.626
02	0.638	-1.849	0.48	-1.098
03	-0.958	-1.849	1.131	-1.025
04	-1.177	-1.701	1.082	-0.58
05	-1.701	-0.377	-0.273	0.863
06	-0.958	0.905	-0.536	-0.58
07	1.011	-1.262	-0.626	-0.834
08	-0.341	-0.12	0.012	0.329
09	-0.12	0.194	0.151	-0.307
10	-1.177	-0.273	-2.023	1.029
11	-0.179	-0.725	0.853	-1.098
12	1.073	-1.572	-0.241	-2.501
13	-1.355	-2.868	1.232	-1.355
14	-1.457	-3.452	1.282	-2.023
15	0.48	-0.58	-2.234	0.54
16	-1.572	1.115	-0.834	-1.177
17	1.148	-2.501	-0.778	-1.177
18	-0.725	0.569	-0.038	-0.241

Standard thresholds

P-value	Threshold
0.001	4.46401
0.0005	5.30226
0.0001	7.07026