LBX2.H12RSNP.0.S.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	LBX2.H12RSNP.0.S.D
Gene (human)	LBX2 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Lbx2
Gene synonyms (mouse)	Lbx2h
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	14
Consensus	nvnCTAATTARYdn
GC content	34.42%
Information content (bits; total / per base)	13.86 / 0.99
Data sources	HT-SELEX
Aligned words	8874

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.968	0.953	0.904	0.889	0.775	0.78
Overall, 4 experiments	best	0.995	0.992	0.991	0.986	0.976	0.968
Methyl HT-SELEX, 1 experiments	median	0.652	0.631	0.574	0.572	0.538	0.543
Methyl HT-SELEX, 1 experiments	best	0.652	0.631	0.574	0.572	0.538	0.543
Non-Methyl HT-SELEX, 3 experiments	median	0.99	0.984	0.969	0.958	0.846	0.85
Non-Methyl HT-SELEX, 3 experiments	best	0.995	0.992	0.991	0.986	0.976	0.968

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.H12RSNP.0.S.D.pcm
PWM	LBX2.H12RSNP.0.S.D.pwm
PFM	LBX2.H12RSNP.0.S.D.pfm
Alignment	LBX2.H12RSNP.0.S.D.words.tsv
Threshold to P-value map	LBX2.H12RSNP.0.S.D.thr
Motif in other formats
JASPAR format	LBX2.H12RSNP.0.S.D_jaspar_format.txt
MEME format	LBX2.H12RSNP.0.S.D_meme_format.meme
Transfac format	LBX2.H12RSNP.0.S.D_transfac_format.txt
Homer format	LBX2.H12RSNP.0.S.D_homer_format_0.001.txt LBX2.H12RSNP.0.S.D_homer_format_0.0005.txt LBX2.H12RSNP.0.S.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2577.75	1673.75	2450.75	2171.75
02	2874.5	1747.5	3182.5	1069.5
03	2664.0	2564.0	2327.0	1319.0
04	73.0	8003.0	317.0	481.0
05	2.0	3532.0	0.0	5340.0
06	8825.0	45.0	4.0	0.0
07	8874.0	0.0	0.0	0.0
08	0.0	0.0	0.0	8874.0
09	0.0	0.0	0.0	8874.0
10	8872.0	0.0	2.0	0.0
11	4391.0	193.0	3987.0	303.0
12	295.0	3594.0	1067.0	3918.0
13	1686.0	1050.0	3290.0	2848.0
14	3398.25	2004.25	1722.25	1749.25

PFM

	A	C	G	T
01	0.29	0.189	0.276	0.245
02	0.324	0.197	0.359	0.121
03	0.3	0.289	0.262	0.149
04	0.008	0.902	0.036	0.054
05	0.0	0.398	0.0	0.602
06	0.994	0.005	0.0	0.0
07	1.0	0.0	0.0	0.0
08	0.0	0.0	0.0	1.0
09	0.0	0.0	0.0	1.0
10	1.0	0.0	0.0	0.0
11	0.495	0.022	0.449	0.034
12	0.033	0.405	0.12	0.442
13	0.19	0.118	0.371	0.321
14	0.383	0.226	0.194	0.197

PWM

	A	C	G	T
01	0.15	-0.281	0.099	-0.021
02	0.259	-0.238	0.361	-0.729
03	0.183	0.145	0.048	-0.519
04	-3.384	1.282	-1.94	-1.525
05	-6.253	0.465	-6.885	0.878
06	1.38	-3.85	-5.869	-6.885
07	1.386	-6.885	-6.885	-6.885
08	-6.885	-6.885	-6.885	1.386
09	-6.885	-6.885	-6.885	1.386
10	1.385	-6.885	-6.253	-6.885
11	0.682	-2.431	0.586	-1.984
12	-2.011	0.482	-0.731	0.568
13	-0.274	-0.747	0.394	0.25
14	0.426	-0.101	-0.253	-0.237

Standard thresholds

P-value	Threshold
0.001	1.05891
0.0005	2.62636
0.0001	6.904065