MotifLHX5.H12INVIVO.0.PSM.D
Gene (human)LHX5
(GeneCards)
Gene synonyms (human)
Gene (mouse)Lhx5
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype0
Quality
D
Motif length12
ConsensusnnvYTAATTAbn
GC content30.71%
Information content (bits; total / per base)11.878 / 0.99
Data sourcesChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words9144

HT-SELEX benchmarking auROC10 auPRC10 auROC25 auPRC25 auROC50 auPRC50
Overall, 2 experiments median 0.965 0.941 0.948 0.919 0.893 0.865
best 0.972 0.951 0.959 0.934 0.914 0.888
Methyl HT-SELEX, 1 experiments median 0.959 0.932 0.936 0.903 0.872 0.842
best 0.959 0.932 0.936 0.903 0.872 0.842
Non-Methyl HT-SELEX, 1 experiments median 0.972 0.951 0.959 0.934 0.914 0.888
best 0.972 0.951 0.959 0.934 0.914 0.888

rSNP benchmarking, SNP-SELEX auROC auPRC Pearson r Kendall tau
batch 1 0.987 0.741 0.932 0.427
batch 2 0.61 0.277 0.559 0.334
TF superclassHelix-turn-helix domains {3} (TFClass)
TF classHomeo domain factors {3.1} (TFClass)
TF familyHD-LIM {3.1.5} (TFClass)
TF subfamilyLHX1-like {3.1.5.2} (TFClass)
TFClass IDTFClass: 3.1.5.2.2
HGNCHGNC:14216
MGIMGI:107792
EntrezGene (human)GeneID:64211
(SSTAR profile)
EntrezGene (mouse)GeneID:16873
(SSTAR profile)
UniProt ID (human)LHX5_HUMAN
UniProt ID (mouse)LHX5_MOUSE
UniProt AC (human)Q9H2C1
(TFClass)
UniProt AC (mouse)P61375
(TFClass)
GRECO-DB-TF
yes
ChIP-Seq 0 human, 0 mouse
HT-SELEX 1
Methyl-HT-SELEX 1
PCM
ACGT
012167.52163.52451.52361.5
022729.752943.752193.751276.75
033234.02088.03411.0411.0
04195.02858.01537.04554.0
050.00.00.09144.0
069144.00.00.00.0
079144.00.00.00.0
080.00.00.09144.0
090.010.017.09117.0
106273.028.02780.063.0
111330.253763.252678.251372.25
122112.52389.52383.52258.5
PFM
ACGT
010.2370.2370.2680.258
020.2990.3220.240.14
030.3540.2280.3730.045
040.0210.3130.1680.498
050.00.00.01.0
061.00.00.00.0
071.00.00.00.0
080.00.00.01.0
090.00.0010.0020.997
100.6860.0030.3040.007
110.1450.4120.2930.15
120.2310.2610.2610.247
PWM
ACGT
01-0.053-0.0550.070.032
020.1770.253-0.041-0.582
030.347-0.0910.4-1.711
04-2.4510.223-0.3960.689
05-6.911-6.911-6.9111.386
061.386-6.911-6.911-6.911
071.386-6.911-6.911-6.911
08-6.911-6.911-6.9111.386
09-6.911-5.228-4.7761.383
101.009-4.3250.195-3.557
11-0.5410.4980.158-0.51
12-0.0790.0440.042-0.012
Standard thresholds
P-value Threshold
0.001 1.68207
0.0005 4.044395
0.0001 8.08798