LBX2.H12INVIVO.1.S.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	LBX2.H12INVIVO.1.S.D
Gene (human)	LBX2 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Lbx2
Gene synonyms (mouse)	Lbx2h
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	17
Consensus	nnvYTAATTARYdvnhn
GC content	35.39%
Information content (bits; total / per base)	14.402 / 0.847
Data sources	HT-SELEX
Aligned words	2484

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.965	0.948	0.902	0.884	0.779	0.78
Overall, 4 experiments	best	0.995	0.993	0.99	0.985	0.972	0.963
Methyl HT-SELEX, 1 experiments	median	0.654	0.635	0.581	0.577	0.543	0.547
Methyl HT-SELEX, 1 experiments	best	0.654	0.635	0.581	0.577	0.543	0.547
Non-Methyl HT-SELEX, 3 experiments	median	0.988	0.981	0.965	0.953	0.851	0.85
Non-Methyl HT-SELEX, 3 experiments	best	0.995	0.993	0.99	0.985	0.972	0.963

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	NK-related {3.1.2} (TFClass)
TF subfamily	LBX {3.1.2.10} (TFClass)
TFClass ID	TFClass: 3.1.2.10.2
HGNC	HGNC:15525
MGI	MGI:1342288
EntrezGene (human)	GeneID:85474 (SSTAR profile)
EntrezGene (mouse)	GeneID:16815 (SSTAR profile)
UniProt ID (human)	LBX2_HUMAN
UniProt ID (mouse)	LBX2_MOUSE
UniProt AC (human)	Q6XYB7 (TFClass)
UniProt AC (mouse)	Q9WUN8 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	LBX2.H12INVIVO.1.S.D.pcm
PWM	LBX2.H12INVIVO.1.S.D.pwm
PFM	LBX2.H12INVIVO.1.S.D.pfm
Alignment	LBX2.H12INVIVO.1.S.D.words.tsv
Threshold to P-value map	LBX2.H12INVIVO.1.S.D.thr
Motif in other formats
JASPAR format	LBX2.H12INVIVO.1.S.D_jaspar_format.txt
MEME format	LBX2.H12INVIVO.1.S.D_meme_format.meme
Transfac format	LBX2.H12INVIVO.1.S.D_transfac_format.txt
Homer format	LBX2.H12INVIVO.1.S.D_homer_format_0.001.txt LBX2.H12INVIVO.1.S.D_homer_format_0.0005.txt LBX2.H12INVIVO.1.S.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	650.5	661.5	669.5	502.5
02	617.0	793.0	734.0	340.0
03	560.0	991.0	733.0	200.0
04	64.0	1878.0	128.0	414.0
05	3.0	819.0	1.0	1661.0
06	2455.0	27.0	1.0	1.0
07	2477.0	0.0	7.0	0.0
08	0.0	0.0	0.0	2484.0
09	0.0	0.0	0.0	2484.0
10	2474.0	0.0	10.0	0.0
11	1807.0	80.0	562.0	35.0
12	26.0	1009.0	191.0	1258.0
13	315.0	280.0	659.0	1230.0
14	1494.0	408.0	345.0	237.0
15	680.0	680.0	699.0	425.0
16	434.75	977.75	425.75	645.75
17	668.75	605.75	569.75	639.75

PFM

	A	C	G	T
01	0.262	0.266	0.27	0.202
02	0.248	0.319	0.295	0.137
03	0.225	0.399	0.295	0.081
04	0.026	0.756	0.052	0.167
05	0.001	0.33	0.0	0.669
06	0.988	0.011	0.0	0.0
07	0.997	0.0	0.003	0.0
08	0.0	0.0	0.0	1.0
09	0.0	0.0	0.0	1.0
10	0.996	0.0	0.004	0.0
11	0.727	0.032	0.226	0.014
12	0.01	0.406	0.077	0.506
13	0.127	0.113	0.265	0.495
14	0.601	0.164	0.139	0.095
15	0.274	0.274	0.281	0.171
16	0.175	0.394	0.171	0.26
17	0.269	0.244	0.229	0.258

PWM

	A	C	G	T
01	0.046	0.063	0.075	-0.211
02	-0.006	0.244	0.167	-0.6
03	-0.103	0.466	0.165	-1.126
04	-2.246	1.105	-1.567	-0.404
05	-4.834	0.276	-5.351	0.982
06	1.372	-3.069	-5.351	-5.351
07	1.381	-5.764	-4.242	-5.764
08	-5.764	-5.764	-5.764	1.384
09	-5.764	-5.764	-5.764	1.384
10	1.38	-5.764	-3.953	-5.764
11	1.066	-2.028	-0.099	-2.825
12	-3.104	0.484	-1.172	0.704
13	-0.676	-0.793	0.059	0.682
14	0.876	-0.418	-0.585	-0.958
15	0.09	0.09	0.118	-0.378
16	-0.355	0.453	-0.376	0.039
17	0.074	-0.025	-0.086	0.03

Standard thresholds

P-value	Threshold
0.001	1.86316
0.0005	3.33211
0.0001	6.72741