MotifLMX1A.H12INVIVO.0.SM.D
Gene (human)LMX1A
(GeneCards)
Gene synonyms (human)
Gene (mouse)Lmx1a
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype0
Quality
D
Motif length12
ConsensusnnnYTAATTRnn
GC content24.34%
Information content (bits; total / per base)11.496 / 0.958
Data sourcesHT-SELEX + Methyl-HT-SELEX
Aligned words9172

HT-SELEX benchmarking auROC10 auPRC10 auROC25 auPRC25 auROC50 auPRC50
Overall, 4 experiments median 0.959 0.931 0.9 0.873 0.764 0.765
best 0.979 0.961 0.97 0.95 0.919 0.898
Methyl HT-SELEX, 1 experiments median 0.952 0.917 0.909 0.874 0.821 0.795
best 0.952 0.917 0.909 0.874 0.821 0.795
Non-Methyl HT-SELEX, 3 experiments median 0.966 0.945 0.89 0.872 0.707 0.735
best 0.979 0.961 0.97 0.95 0.919 0.898

rSNP benchmarking, SNP-SELEX auROC auPRC Pearson r Kendall tau
batch 2 0.971 0.925 0.899 0.635
TF superclassHelix-turn-helix domains {3} (TFClass)
TF classHomeo domain factors {3.1} (TFClass)
TF familyHD-LIM {3.1.5} (TFClass)
TF subfamilyLMX {3.1.5.6} (TFClass)
TFClass IDTFClass: 3.1.5.6.1
HGNCHGNC:6653
MGIMGI:1888519
EntrezGene (human)GeneID:4009
(SSTAR profile)
EntrezGene (mouse)GeneID:110648
(SSTAR profile)
UniProt ID (human)LMX1A_HUMAN
UniProt ID (mouse)LMX1A_MOUSE
UniProt AC (human)Q8TE12
(TFClass)
UniProt AC (mouse)Q9JKU8
(TFClass)
GRECO-DB-TF
yes
ChIP-Seq 0 human, 0 mouse
HT-SELEX 3
Methyl-HT-SELEX 1
PCM
ACGT
012078.02208.01976.02910.0
022599.52530.51802.52239.5
033197.02196.01985.01794.0
04216.02000.01172.05784.0
050.00.00.09172.0
069172.00.00.00.0
079172.00.00.00.0
080.00.00.09172.0
0911.033.069.09059.0
106545.0206.02147.0274.0
112684.752181.752612.751692.75
123006.251871.251794.252500.25
PFM
ACGT
010.2270.2410.2150.317
020.2830.2760.1970.244
030.3490.2390.2160.196
040.0240.2180.1280.631
050.00.00.01.0
061.00.00.00.0
071.00.00.00.0
080.00.00.01.0
090.0010.0040.0080.988
100.7140.0220.2340.03
110.2930.2380.2850.185
120.3280.2040.1960.273
PWM
ACGT
01-0.098-0.038-0.1490.238
020.1250.098-0.24-0.024
030.332-0.043-0.144-0.245
04-2.353-0.137-0.670.925
05-6.914-6.914-6.9141.386
061.386-6.914-6.914-6.914
071.386-6.914-6.914-6.914
08-6.914-6.914-6.9141.386
09-5.152-4.175-3.4721.373
101.048-2.4-0.066-2.117
110.158-0.050.13-0.303
120.271-0.203-0.2450.086
Standard thresholds
P-value Threshold
0.001 3.090715
0.0005 5.25331
0.0001 7.93318