MotifCDX1.H12INVIVO.1.S.D
Gene (human)CDX1
(GeneCards)
Gene synonyms (human)
Gene (mouse)Cdx1
Gene synonyms (mouse)Cdx-1
LOGO
LOGO (reverse complement)
Motif subtype1
Quality
D
Motif length13
ConsensusnnTTTATKGSnnn
GC content36.95%
Information content (bits; total / per base)11.462 / 0.882
Data sourcesHT-SELEX
Aligned words7806

HT-SELEX benchmarking auROC10 auPRC10 auROC25 auPRC25 auROC50 auPRC50
Overall, 6 experiments median 0.978 0.964 0.946 0.927 0.875 0.855
best 0.996 0.993 0.994 0.99 0.975 0.97
Methyl HT-SELEX, 2 experiments median 0.983 0.973 0.958 0.943 0.901 0.883
best 0.991 0.984 0.984 0.975 0.948 0.933
Non-Methyl HT-SELEX, 4 experiments median 0.978 0.964 0.928 0.912 0.814 0.814
best 0.996 0.993 0.994 0.99 0.975 0.97

rSNP benchmarking, SNP-SELEX auROC auPRC Pearson r Kendall tau
batch 1 0.967 0.758 0.9 0.624
batch 2 0.859 0.771 0.849 0.584
TF superclassHelix-turn-helix domains {3} (TFClass)
TF classHomeo domain factors {3.1} (TFClass)
TF familyHOX-related {3.1.1} (TFClass)
TF subfamilyCDX {3.1.1.9} (TFClass)
TFClass IDTFClass: 3.1.1.9.1
HGNCHGNC:1805
MGIMGI:88360
EntrezGene (human)GeneID:1044
(SSTAR profile)
EntrezGene (mouse)GeneID:12590
(SSTAR profile)
UniProt ID (human)CDX1_HUMAN
UniProt ID (mouse)CDX1_MOUSE
UniProt AC (human)P47902
(TFClass)
UniProt AC (mouse)P18111
(TFClass)
GRECO-DB-TF
yes
ChIP-Seq 0 human, 0 mouse
HT-SELEX 4
Methyl-HT-SELEX 2
PCM
ACGT
012033.51800.52521.51450.5
021529.751407.752554.752313.75
03259.082.0365.07100.0
044.09.00.07793.0
05764.00.010.07032.0
067806.00.00.00.0
070.0154.02.07650.0
0861.010.03889.03846.0
093247.010.04547.02.0
10314.04856.01494.01142.0
111313.02555.02294.01644.0
121174.52578.52388.51664.5
131463.02011.01957.02375.0
PFM
ACGT
010.2610.2310.3230.186
020.1960.180.3270.296
030.0330.0110.0470.91
040.0010.0010.00.998
050.0980.00.0010.901
061.00.00.00.0
070.00.020.00.98
080.0080.0010.4980.493
090.4160.0010.5830.0
100.040.6220.1910.146
110.1680.3270.2940.211
120.150.330.3060.213
130.1870.2580.2510.304
PWM
ACGT
010.041-0.080.256-0.296
02-0.243-0.3260.2690.17
03-2.012-3.144-1.6711.291
04-5.746-5.158-6.7711.384
05-0.936-6.771-5.0731.281
061.385-6.771-6.771-6.771
07-6.771-2.526-6.1331.365
08-3.431-5.0730.6890.678
090.509-5.0730.845-6.133
10-1.8210.911-0.267-0.535
11-0.3960.2690.162-0.171
12-0.5070.2780.202-0.159
13-0.2880.030.0030.196
Standard thresholds
P-value Threshold
0.001 3.93406
0.0005 5.27386
0.0001 7.7955