| Motif | RXRA.H12INVITRO.3.P.B |
| Gene (human) | RXRA (GeneCards) |
| Gene synonyms (human) | NR2B1 |
| Gene (mouse) | Rxra |
| Gene synonyms (mouse) | Nr2b1 |
| LOGO |  |
| LOGO (reverse complement) |  |
| Motif subtype | 3 |
| Quality | B |
| Motif | RXRA.H12INVITRO.3.P.B |
| Gene (human) | RXRA (GeneCards) |
| Gene synonyms (human) | NR2B1 |
| Gene (mouse) | Rxra |
| Gene synonyms (mouse) | Nr2b1 |
| LOGO | |
| LOGO (reverse complement) | |
| Motif subtype | 3 |
| Quality | B |
| Motif length | 21 |
| Consensus | dRRRdvdnvndRAGGTCAvRR |
| GC content | 57.52% |
| Information content (bits; total / per base) | 13.018 / 0.62 |
| Data sources | ChIP-Seq |
| Aligned words | 1007 |
| 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) | 0.689 | 0.724 | 0.483 | 0.566 | 0.726 | 0.775 | 2.042 | 2.637 | 38.699 | 68.921 |
| Mouse | 47 (263) | 0.688 | 0.923 | 0.489 | 0.863 | 0.712 | 0.955 | 1.951 | 4.905 | 36.469 | 235.796 |
| HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
|---|---|---|---|---|---|---|---|
| Overall, 7 experiments | median | 0.747 | 0.708 | 0.638 | 0.627 | 0.57 | 0.576 |
| best | 0.939 | 0.907 | 0.861 | 0.831 | 0.723 | 0.724 | |
| Methyl HT-SELEX, 1 experiments | median | 0.62 | 0.583 | 0.574 | 0.556 | 0.537 | 0.535 |
| best | 0.62 | 0.583 | 0.574 | 0.556 | 0.537 | 0.535 | |
| Non-Methyl HT-SELEX, 6 experiments | median | 0.768 | 0.728 | 0.655 | 0.641 | 0.579 | 0.586 |
| best | 0.939 | 0.907 | 0.861 | 0.831 | 0.723 | 0.724 | |
| rSNP benchmarking, ADASTRA | odds-ratio | -log-Fisher's P | Pearson r | Kendall tau |
|---|---|---|---|---|
| # | 4.746 | 4.142 | 0.136 | 0.099 |
| TF superclass | Zinc-coordinating DNA-binding domains {2} (TFClass) |
| TF class | Nuclear receptors with C4 zinc fingers {2.1} (TFClass) |
| TF family | RXR-related receptors {2.1.3} (TFClass) |
| TF subfamily | RXR (NR2B) {2.1.3.1} (TFClass) |
| TFClass ID | TFClass: 2.1.3.1.1 |
| HGNC | HGNC:10477 |
| MGI | MGI: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 | RXRA.H12INVITRO.3.P.B.pcm |
| PWM | RXRA.H12INVITRO.3.P.B.pwm |
| PFM | RXRA.H12INVITRO.3.P.B.pfm |
| Alignment | RXRA.H12INVITRO.3.P.B.words.tsv |
| Threshold to P-value map | RXRA.H12INVITRO.3.P.B.thr |
| Motif in other formats | |
| JASPAR format | RXRA.H12INVITRO.3.P.B_jaspar_format.txt |
| MEME format | RXRA.H12INVITRO.3.P.B_meme_format.meme |
| Transfac format | RXRA.H12INVITRO.3.P.B_transfac_format.txt |
| Homer format | |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 336.0 | 122.0 | 421.0 | 128.0 |
| 02 | 283.0 | 104.0 | 560.0 | 60.0 |
| 03 | 161.0 | 43.0 | 704.0 | 99.0 |
| 04 | 214.0 | 41.0 | 638.0 | 114.0 |
| 05 | 142.0 | 78.0 | 395.0 | 392.0 |
| 06 | 118.0 | 377.0 | 432.0 | 80.0 |
| 07 | 527.0 | 67.0 | 314.0 | 99.0 |
| 08 | 168.0 | 190.0 | 330.0 | 319.0 |
| 09 | 195.0 | 335.0 | 352.0 | 125.0 |
| 10 | 305.0 | 251.0 | 312.0 | 139.0 |
| 11 | 423.0 | 124.0 | 267.0 | 193.0 |
| 12 | 341.0 | 110.0 | 540.0 | 16.0 |
| 13 | 757.0 | 4.0 | 241.0 | 5.0 |
| 14 | 22.0 | 3.0 | 980.0 | 2.0 |
| 15 | 6.0 | 7.0 | 698.0 | 296.0 |
| 16 | 25.0 | 49.0 | 117.0 | 816.0 |
| 17 | 9.0 | 899.0 | 84.0 | 15.0 |
| 18 | 968.0 | 3.0 | 14.0 | 22.0 |
| 19 | 438.0 | 127.0 | 356.0 | 86.0 |
| 20 | 197.0 | 122.0 | 608.0 | 80.0 |
| 21 | 170.0 | 124.0 | 620.0 | 93.0 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.334 | 0.121 | 0.418 | 0.127 |
| 02 | 0.281 | 0.103 | 0.556 | 0.06 |
| 03 | 0.16 | 0.043 | 0.699 | 0.098 |
| 04 | 0.213 | 0.041 | 0.634 | 0.113 |
| 05 | 0.141 | 0.077 | 0.392 | 0.389 |
| 06 | 0.117 | 0.374 | 0.429 | 0.079 |
| 07 | 0.523 | 0.067 | 0.312 | 0.098 |
| 08 | 0.167 | 0.189 | 0.328 | 0.317 |
| 09 | 0.194 | 0.333 | 0.35 | 0.124 |
| 10 | 0.303 | 0.249 | 0.31 | 0.138 |
| 11 | 0.42 | 0.123 | 0.265 | 0.192 |
| 12 | 0.339 | 0.109 | 0.536 | 0.016 |
| 13 | 0.752 | 0.004 | 0.239 | 0.005 |
| 14 | 0.022 | 0.003 | 0.973 | 0.002 |
| 15 | 0.006 | 0.007 | 0.693 | 0.294 |
| 16 | 0.025 | 0.049 | 0.116 | 0.81 |
| 17 | 0.009 | 0.893 | 0.083 | 0.015 |
| 18 | 0.961 | 0.003 | 0.014 | 0.022 |
| 19 | 0.435 | 0.126 | 0.354 | 0.085 |
| 20 | 0.196 | 0.121 | 0.604 | 0.079 |
| 21 | 0.169 | 0.123 | 0.616 | 0.092 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.287 | -0.717 | 0.511 | -0.67 |
| 02 | 0.116 | -0.874 | 0.796 | -1.413 |
| 03 | -0.443 | -1.735 | 1.024 | -0.923 |
| 04 | -0.161 | -1.78 | 0.926 | -0.784 |
| 05 | -0.567 | -1.157 | 0.448 | 0.44 |
| 06 | -0.75 | 0.402 | 0.537 | -1.132 |
| 07 | 0.735 | -1.305 | 0.22 | -0.923 |
| 08 | -0.401 | -0.279 | 0.269 | 0.235 |
| 09 | -0.253 | 0.284 | 0.333 | -0.693 |
| 10 | 0.191 | -0.003 | 0.213 | -0.588 |
| 11 | 0.516 | -0.701 | 0.058 | -0.264 |
| 12 | 0.302 | -0.819 | 0.759 | -2.66 |
| 13 | 1.096 | -3.79 | -0.043 | -3.629 |
| 14 | -2.369 | -3.982 | 1.354 | -4.219 |
| 15 | -3.49 | -3.369 | 1.015 | 0.161 |
| 16 | -2.25 | -1.609 | -0.758 | 1.171 |
| 17 | -3.162 | 1.268 | -1.084 | -2.718 |
| 18 | 1.342 | -3.982 | -2.78 | -2.369 |
| 19 | 0.551 | -0.678 | 0.344 | -1.061 |
| 20 | -0.243 | -0.717 | 0.878 | -1.132 |
| 21 | -0.389 | -0.701 | 0.897 | -0.984 |
| P-value | Threshold |
|---|---|
| 0.001 | 3.91366 |
| 0.0005 | 4.92816 |
| 0.0001 | 7.01791 |