| Motif | RXRA.H12INVIVO.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.H12INVIVO.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 | vRRRKbRdvnnvAGGKCAvvv |
| GC content | 56.09% |
| Information content (bits; total / per base) | 12.884 / 0.614 |
| Data sources | ChIP-Seq |
| Aligned words | 286 |
| 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) | 0.698 | 0.737 | 0.499 | 0.591 | 0.705 | 0.762 | 1.968 | 2.651 | 40.599 | 79.409 |
| Mouse | 47 (263) | 0.697 | 0.936 | 0.514 | 0.89 | 0.694 | 0.953 | 1.87 | 5.144 | 37.276 | 244.796 |
| HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
|---|---|---|---|---|---|---|---|
| Overall, 7 experiments | median | 0.724 | 0.682 | 0.63 | 0.614 | 0.568 | 0.57 |
| best | 0.918 | 0.879 | 0.837 | 0.802 | 0.714 | 0.707 | |
| Methyl HT-SELEX, 1 experiments | median | 0.611 | 0.576 | 0.57 | 0.551 | 0.537 | 0.533 |
| best | 0.611 | 0.576 | 0.57 | 0.551 | 0.537 | 0.533 | |
| Non-Methyl HT-SELEX, 6 experiments | median | 0.744 | 0.7 | 0.646 | 0.627 | 0.578 | 0.579 |
| best | 0.918 | 0.879 | 0.837 | 0.802 | 0.714 | 0.707 | |
| rSNP benchmarking, ADASTRA | odds-ratio | -log-Fisher's P | Pearson r | Kendall tau |
|---|---|---|---|---|
| # | 4.504 | 3.815 | 0.119 | 0.089 |
| 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.H12INVIVO.3.P.B.pcm |
| PWM | RXRA.H12INVIVO.3.P.B.pwm |
| PFM | RXRA.H12INVIVO.3.P.B.pfm |
| Alignment | RXRA.H12INVIVO.3.P.B.words.tsv |
| Threshold to P-value map | RXRA.H12INVIVO.3.P.B.thr |
| Motif in other formats | |
| JASPAR format | RXRA.H12INVIVO.3.P.B_jaspar_format.txt |
| MEME format | RXRA.H12INVIVO.3.P.B_meme_format.meme |
| Transfac format | RXRA.H12INVIVO.3.P.B_transfac_format.txt |
| Homer format | |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 96.0 | 36.0 | 124.0 | 30.0 |
| 02 | 96.0 | 22.0 | 161.0 | 7.0 |
| 03 | 52.0 | 14.0 | 206.0 | 14.0 |
| 04 | 53.0 | 6.0 | 181.0 | 46.0 |
| 05 | 29.0 | 14.0 | 97.0 | 146.0 |
| 06 | 15.0 | 143.0 | 97.0 | 31.0 |
| 07 | 160.0 | 10.0 | 84.0 | 32.0 |
| 08 | 59.0 | 40.0 | 78.0 | 109.0 |
| 09 | 47.0 | 101.0 | 94.0 | 44.0 |
| 10 | 95.0 | 65.0 | 79.0 | 47.0 |
| 11 | 100.0 | 47.0 | 75.0 | 64.0 |
| 12 | 93.0 | 52.0 | 121.0 | 20.0 |
| 13 | 207.0 | 5.0 | 73.0 | 1.0 |
| 14 | 3.0 | 0.0 | 283.0 | 0.0 |
| 15 | 1.0 | 1.0 | 200.0 | 84.0 |
| 16 | 7.0 | 24.0 | 30.0 | 225.0 |
| 17 | 6.0 | 263.0 | 12.0 | 5.0 |
| 18 | 279.0 | 0.0 | 2.0 | 5.0 |
| 19 | 93.0 | 46.0 | 109.0 | 38.0 |
| 20 | 62.0 | 53.0 | 143.0 | 28.0 |
| 21 | 71.0 | 39.0 | 139.0 | 37.0 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.336 | 0.126 | 0.434 | 0.105 |
| 02 | 0.336 | 0.077 | 0.563 | 0.024 |
| 03 | 0.182 | 0.049 | 0.72 | 0.049 |
| 04 | 0.185 | 0.021 | 0.633 | 0.161 |
| 05 | 0.101 | 0.049 | 0.339 | 0.51 |
| 06 | 0.052 | 0.5 | 0.339 | 0.108 |
| 07 | 0.559 | 0.035 | 0.294 | 0.112 |
| 08 | 0.206 | 0.14 | 0.273 | 0.381 |
| 09 | 0.164 | 0.353 | 0.329 | 0.154 |
| 10 | 0.332 | 0.227 | 0.276 | 0.164 |
| 11 | 0.35 | 0.164 | 0.262 | 0.224 |
| 12 | 0.325 | 0.182 | 0.423 | 0.07 |
| 13 | 0.724 | 0.017 | 0.255 | 0.003 |
| 14 | 0.01 | 0.0 | 0.99 | 0.0 |
| 15 | 0.003 | 0.003 | 0.699 | 0.294 |
| 16 | 0.024 | 0.084 | 0.105 | 0.787 |
| 17 | 0.021 | 0.92 | 0.042 | 0.017 |
| 18 | 0.976 | 0.0 | 0.007 | 0.017 |
| 19 | 0.325 | 0.161 | 0.381 | 0.133 |
| 20 | 0.217 | 0.185 | 0.5 | 0.098 |
| 21 | 0.248 | 0.136 | 0.486 | 0.129 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.29 | -0.667 | 0.542 | -0.842 |
| 02 | 0.29 | -1.136 | 0.801 | -2.159 |
| 03 | -0.311 | -1.554 | 1.045 | -1.554 |
| 04 | -0.293 | -2.286 | 0.917 | -0.43 |
| 05 | -0.874 | -1.554 | 0.3 | 0.704 |
| 06 | -1.491 | 0.683 | 0.3 | -0.811 |
| 07 | 0.795 | -1.854 | 0.158 | -0.78 |
| 08 | -0.188 | -0.566 | 0.085 | 0.415 |
| 09 | -0.409 | 0.34 | 0.269 | -0.473 |
| 10 | 0.279 | -0.093 | 0.098 | -0.409 |
| 11 | 0.33 | -0.409 | 0.047 | -0.109 |
| 12 | 0.258 | -0.311 | 0.518 | -1.225 |
| 13 | 1.05 | -2.431 | 0.02 | -3.408 |
| 14 | -2.804 | -3.943 | 1.361 | -3.943 |
| 15 | -3.408 | -3.408 | 1.016 | 0.158 |
| 16 | -2.159 | -1.054 | -0.842 | 1.133 |
| 17 | -2.286 | 1.288 | -1.693 | -2.431 |
| 18 | 1.347 | -3.943 | -3.061 | -2.431 |
| 19 | 0.258 | -0.43 | 0.415 | -0.615 |
| 20 | -0.14 | -0.293 | 0.683 | -0.908 |
| 21 | -0.007 | -0.59 | 0.655 | -0.641 |
| P-value | Threshold |
|---|---|
| 0.001 | 4.08036 |
| 0.0005 | 5.06846 |
| 0.0001 | 7.10101 |