GBX1.H12INVIVO.1.S.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GBX1.H12INVIVO.1.S.D
Gene (human)	GBX1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Gbx1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	20
Consensus	bvCTAATTASbbhhWWWWbn
GC content	35.11%
Information content (bits; total / per base)	16.316 / 0.816
Data sources	HT-SELEX
Aligned words	618

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 4 experiments	median	0.987	0.981	0.942	0.932	0.752	0.784
Non-Methyl HT-SELEX, 4 experiments	best	0.994	0.99	0.983	0.976	0.816	0.845

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	HOX-related {3.1.1} (TFClass)
TF subfamily	GBX {3.1.1.11} (TFClass)
TFClass ID	TFClass: 3.1.1.11.1
HGNC	HGNC:4185
MGI	MGI:95667
EntrezGene (human)	GeneID:2636 (SSTAR profile)
EntrezGene (mouse)	GeneID:231044 (SSTAR profile)
UniProt ID (human)	GBX1_HUMAN
UniProt ID (mouse)	GBX1_MOUSE
UniProt AC (human)	Q14549 (TFClass)
UniProt AC (mouse)	P82976 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	4
Methyl-HT-SELEX	0

PCM	GBX1.H12INVIVO.1.S.D.pcm
PWM	GBX1.H12INVIVO.1.S.D.pwm
PFM	GBX1.H12INVIVO.1.S.D.pfm
Alignment	GBX1.H12INVIVO.1.S.D.words.tsv
Threshold to P-value map	GBX1.H12INVIVO.1.S.D.thr
Motif in other formats
JASPAR format	GBX1.H12INVIVO.1.S.D_jaspar_format.txt
MEME format	GBX1.H12INVIVO.1.S.D_meme_format.meme
Transfac format	GBX1.H12INVIVO.1.S.D_transfac_format.txt
Homer format	GBX1.H12INVIVO.1.S.D_homer_format_0.001.txt GBX1.H12INVIVO.1.S.D_homer_format_0.0005.txt GBX1.H12INVIVO.1.S.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	84.0	305.0	138.0	91.0
02	129.5	164.5	261.5	62.5
03	11.0	490.0	89.0	28.0
04	0.0	56.0	0.0	562.0
05	618.0	0.0	0.0	0.0
06	618.0	0.0	0.0	0.0
07	0.0	0.0	0.0	618.0
08	0.0	2.0	0.0	616.0
09	476.0	0.0	142.0	0.0
10	55.0	183.0	367.0	13.0
11	24.0	289.0	116.0	189.0
12	70.0	216.0	256.0	76.0
13	226.0	196.0	86.0	110.0
14	245.0	137.0	48.0	188.0
15	216.0	62.0	18.0	322.0
16	329.0	13.0	10.0	266.0
17	377.0	14.0	14.0	213.0
18	195.0	55.0	38.0	330.0
19	67.25	106.25	145.25	299.25
20	165.0	146.0	176.0	131.0

PFM

	A	C	G	T
01	0.136	0.494	0.223	0.147
02	0.21	0.266	0.423	0.101
03	0.018	0.793	0.144	0.045
04	0.0	0.091	0.0	0.909
05	1.0	0.0	0.0	0.0
06	1.0	0.0	0.0	0.0
07	0.0	0.0	0.0	1.0
08	0.0	0.003	0.0	0.997
09	0.77	0.0	0.23	0.0
10	0.089	0.296	0.594	0.021
11	0.039	0.468	0.188	0.306
12	0.113	0.35	0.414	0.123
13	0.366	0.317	0.139	0.178
14	0.396	0.222	0.078	0.304
15	0.35	0.1	0.029	0.521
16	0.532	0.021	0.016	0.43
17	0.61	0.023	0.023	0.345
18	0.316	0.089	0.061	0.534
19	0.109	0.172	0.235	0.484
20	0.267	0.236	0.285	0.212

PWM

	A	C	G	T
01	-0.601	0.675	-0.112	-0.522
02	-0.175	0.062	0.522	-0.89
03	-2.516	1.147	-0.544	-1.663
04	-4.576	-0.997	-4.576	1.284
05	1.379	-4.576	-4.576	-4.576
06	1.379	-4.576	-4.576	-4.576
07	-4.576	-4.576	-4.576	1.379
08	-4.576	-3.768	-4.576	1.375
09	1.118	-4.576	-0.083	-4.576
10	-1.014	0.168	0.859	-2.369
11	-1.808	0.621	-0.283	0.2
12	-0.779	0.332	0.501	-0.699
13	0.377	0.236	-0.578	-0.336
14	0.457	-0.119	-1.146	0.194
15	0.332	-0.898	-2.075	0.729
16	0.75	-2.369	-2.599	0.539
17	0.886	-2.303	-2.303	0.318
18	0.231	-1.014	-1.372	0.753
19	-0.819	-0.37	-0.061	0.656
20	0.065	-0.056	0.129	-0.163

Standard thresholds

P-value	Threshold
0.001	1.72811
0.0005	3.14851
0.0001	6.10806