MotifRXRA.H12INVIVO.2.SM.B
Gene (human)RXRA
(GeneCards)
Gene synonyms (human)NR2B1
Gene (mouse)Rxra
Gene synonyms (mouse)Nr2b1
LOGO
LOGO (reverse complement)
Motif subtype2
Quality
B
Motif length15
ConsensusvdKKYYAAAGGTCAn
GC content47.28%
Information content (bits; total / per base)14.07 / 0.938
Data sourcesHT-SELEX + Methyl-HT-SELEX
Aligned words9974

ChIP-Seq benchmarking Num. of experiments (peaksets) auROC, median auROC, best auPRC, median auPRC, best pseudo-auROC, median pseudo-auROC, best pseudo-log-auROC, median pseudo-log-auROC, best Centrality, median Centrality, best
Human 9 (58) 0.771 0.84 0.648 0.721 0.719 0.796 2.074 2.445 67.724 129.796
Mouse 47 (263) 0.706 0.822 0.556 0.678 0.682 0.798 1.914 2.521 52.495 153.155

HT-SELEX benchmarking auROC10 auPRC10 auROC25 auPRC25 auROC50 auPRC50
Overall, 7 experiments median 0.837 0.842 0.674 0.691 0.588 0.613
best 1.0 1.0 0.955 0.957 0.777 0.805
Methyl HT-SELEX, 1 experiments median 0.652 0.673 0.572 0.588 0.539 0.552
best 0.652 0.673 0.572 0.588 0.539 0.552
Non-Methyl HT-SELEX, 6 experiments median 0.875 0.878 0.7 0.717 0.602 0.629
best 1.0 1.0 0.955 0.957 0.777 0.805

rSNP benchmarking, ADASTRA odds-ratio -log-Fisher's P Pearson r Kendall tau
# 3.067 2.349 0.139 0.101
TF superclassZinc-coordinating DNA-binding domains {2} (TFClass)
TF classNuclear receptors with C4 zinc fingers {2.1} (TFClass)
TF familyRXR-related receptors {2.1.3} (TFClass)
TF subfamilyRXR (NR2B) {2.1.3.1} (TFClass)
TFClass IDTFClass: 2.1.3.1.1
HGNCHGNC:10477
MGIMGI:98214
EntrezGene (human)GeneID:6256
(SSTAR profile)
EntrezGene (mouse)GeneID:20181
(SSTAR profile)
UniProt ID (human)RXRA_HUMAN
UniProt ID (mouse)RXRA_MOUSE
UniProt AC (human)P19793
(TFClass)
UniProt AC (mouse)P28700
(TFClass)
GRECO-DB-TF
yes
ChIP-Seq 9 human, 47 mouse
HT-SELEX 6
Methyl-HT-SELEX 1
PCM
ACGT
013241.251429.253897.251406.25
024559.5658.53970.5785.5
03787.0621.07684.0882.0
04895.0564.06553.01962.0
05731.0874.0849.07520.0
06999.06597.0903.01475.0
078285.0531.0474.0684.0
087963.0196.01266.0549.0
098631.057.01173.0113.0
1061.050.09764.099.0
11105.064.08711.01094.0
12144.086.0270.09474.0
13232.08213.0493.01036.0
148566.25154.251097.25156.25
153332.02190.01347.03105.0
PFM
ACGT
010.3250.1430.3910.141
020.4570.0660.3980.079
030.0790.0620.770.088
040.090.0570.6570.197
050.0730.0880.0850.754
060.10.6610.0910.148
070.8310.0530.0480.069
080.7980.020.1270.055
090.8650.0060.1180.011
100.0060.0050.9790.01
110.0110.0060.8730.11
120.0140.0090.0270.95
130.0230.8230.0490.104
140.8590.0150.110.016
150.3340.220.1350.311
PWM
ACGT
010.262-0.5560.446-0.572
020.603-1.3290.465-1.153
03-1.151-1.3871.125-1.038
04-1.023-1.4830.966-0.239
05-1.225-1.047-1.0761.103
06-0.9130.972-1.014-0.524
071.2-1.543-1.656-1.291
081.16-2.533-0.677-1.51
091.241-3.74-0.753-3.075
10-3.674-3.8651.364-3.204
11-3.147-3.6281.25-0.823
12-2.837-3.342-2.2151.334
13-2.3661.191-1.617-0.877
141.233-2.769-0.82-2.756
150.29-0.13-0.6150.219
Standard thresholds
P-value Threshold
0.001 3.48561
0.0005 4.53491
0.0001 6.74831