| Motif | RARG.H14INVIVO.2.SM.B |
| Gene (human) | RARG (GeneCards) |
| Gene synonyms (human) | NR1B3 |
| Gene (mouse) | Rarg |
| Gene synonyms (mouse) | Nr1b3 |
| LOGO |  |
| LOGO (reverse complement) |  |
| Motif subtype | 2 |
| Quality | B |
| Motif | RARG.H14INVIVO.2.SM.B |
| Gene (human) | RARG (GeneCards) |
| Gene synonyms (human) | NR1B3 |
| Gene (mouse) | Rarg |
| Gene synonyms (mouse) | Nr1b3 |
| LOGO | |
| LOGO (reverse complement) | |
| Motif subtype | 2 |
| Quality | B |
| Motif length | 17 |
| Consensus | nhRAGGTCAhdvvvdbn |
| GC content | 47.07% |
| Information content (bits; total / per base) | 13.445 / 0.791 |
| Data sources | HT-SELEX + Methyl-HT-SELEX |
| Aligned words | 9944 |
| Previous names | RARG.H12INVIVO.2.SM.B |
| 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 | 5 (21) | 0.709 | 0.788 | 0.522 | 0.604 | 0.689 | 0.751 | 1.763 | 1.967 | 43.036 | 72.076 |
| HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
|---|---|---|---|---|---|---|---|
| Overall, 10 experiments | median | 0.91 | 0.889 | 0.749 | 0.749 | 0.63 | 0.651 |
| best | 0.999 | 0.999 | 0.998 | 0.996 | 0.995 | 0.992 | |
| Methyl HT-SELEX, 2 experiments | median | 0.984 | 0.972 | 0.977 | 0.963 | 0.963 | 0.946 |
| best | 0.998 | 0.996 | 0.996 | 0.993 | 0.992 | 0.988 | |
| Non-Methyl HT-SELEX, 8 experiments | median | 0.856 | 0.84 | 0.691 | 0.7 | 0.593 | 0.617 |
| best | 0.999 | 0.999 | 0.998 | 0.996 | 0.995 | 0.992 | |
| rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
|---|---|---|---|---|
| batch 1 | 0.991 | 0.412 | 0.954 | 0.367 |
| batch 2 | 0.56 | 0.102 | 0.446 | 0.316 |
| TF superclass | Zinc-coordinating DNA-binding domains {2} (TFClass) |
| TF class | Nuclear receptors with C4 zinc fingers {2.1} (TFClass) |
| TF family | Thyroid hormone receptor-related {2.1.2} (TFClass) |
| TF subfamily | RAR (NR1B) {2.1.2.1} (TFClass) |
| TFClass ID | TFClass: 2.1.2.1.3 |
| HGNC | HGNC:9866 |
| MGI | MGI:97858 |
| EntrezGene (human) | GeneID:5916 (SSTAR profile) |
| EntrezGene (mouse) | GeneID:19411 (SSTAR profile) |
| UniProt ID (human) | RARG_HUMAN |
| UniProt ID (mouse) | RARG_MOUSE |
| UniProt AC (human) | P13631 (TFClass) |
| UniProt AC (mouse) | P18911 (TFClass) |
| GRECO-DB-TF | yes |
| ChIP-Seq | 5 human, 0 mouse |
| HT-SELEX | 8 |
| Methyl-HT-SELEX | 2 |
| Genomic HT-SELEX | 0 overall: 0 Lysate, 0 IVT, 0 GFPIVT |
| SMiLE-Seq | 0 |
| PBM | 0 |
| PCM | RARG.H14INVIVO.2.SM.B.pcm |
| PWM | RARG.H14INVIVO.2.SM.B.pwm |
| PFM | RARG.H14INVIVO.2.SM.B.pfm |
| Threshold to P-value map | RARG.H14INVIVO.2.SM.B.thr |
| Motif in other formats | |
| JASPAR format | RARG.H14INVIVO.2.SM.B_jaspar_format.txt |
| MEME format | RARG.H14INVIVO.2.SM.B_meme_format.meme |
| Transfac format | RARG.H14INVIVO.2.SM.B_transfac_format.txt |
| Homer format | |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 2952.5 | 2425.5 | 2077.5 | 2488.5 |
| 02 | 4881.5 | 1666.5 | 978.5 | 2417.5 |
| 03 | 6515.0 | 309.0 | 2178.0 | 942.0 |
| 04 | 9229.0 | 129.0 | 584.0 | 2.0 |
| 05 | 0.0 | 0.0 | 9943.0 | 1.0 |
| 06 | 0.0 | 0.0 | 9632.0 | 312.0 |
| 07 | 2.0 | 2.0 | 18.0 | 9922.0 |
| 08 | 1.0 | 9912.0 | 8.0 | 23.0 |
| 09 | 9869.0 | 1.0 | 69.0 | 5.0 |
| 10 | 3214.0 | 2296.0 | 422.0 | 4012.0 |
| 11 | 2680.0 | 1338.0 | 4494.0 | 1432.0 |
| 12 | 5108.0 | 1386.0 | 2074.0 | 1376.0 |
| 13 | 2459.0 | 2209.0 | 4038.0 | 1238.0 |
| 14 | 1949.0 | 2417.0 | 4481.0 | 1097.0 |
| 15 | 1456.0 | 1067.0 | 3110.0 | 4311.0 |
| 16 | 1227.75 | 3519.75 | 2673.75 | 2522.75 |
| 17 | 3483.25 | 1916.25 | 2198.25 | 2346.25 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.297 | 0.244 | 0.209 | 0.25 |
| 02 | 0.491 | 0.168 | 0.098 | 0.243 |
| 03 | 0.655 | 0.031 | 0.219 | 0.095 |
| 04 | 0.928 | 0.013 | 0.059 | 0.0 |
| 05 | 0.0 | 0.0 | 1.0 | 0.0 |
| 06 | 0.0 | 0.0 | 0.969 | 0.031 |
| 07 | 0.0 | 0.0 | 0.002 | 0.998 |
| 08 | 0.0 | 0.997 | 0.001 | 0.002 |
| 09 | 0.992 | 0.0 | 0.007 | 0.001 |
| 10 | 0.323 | 0.231 | 0.042 | 0.403 |
| 11 | 0.27 | 0.135 | 0.452 | 0.144 |
| 12 | 0.514 | 0.139 | 0.209 | 0.138 |
| 13 | 0.247 | 0.222 | 0.406 | 0.124 |
| 14 | 0.196 | 0.243 | 0.451 | 0.11 |
| 15 | 0.146 | 0.107 | 0.313 | 0.434 |
| 16 | 0.123 | 0.354 | 0.269 | 0.254 |
| 17 | 0.35 | 0.193 | 0.221 | 0.236 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.172 | -0.025 | -0.179 | 0.001 |
| 02 | 0.674 | -0.399 | -0.931 | -0.028 |
| 03 | 0.963 | -2.079 | -0.132 | -0.969 |
| 04 | 1.311 | -2.942 | -1.446 | -6.36 |
| 05 | -6.986 | -6.986 | 1.385 | -6.625 |
| 06 | -6.986 | -6.986 | 1.354 | -2.069 |
| 07 | -6.36 | -6.36 | -4.809 | 1.383 |
| 08 | -6.625 | 1.382 | -5.487 | -4.589 |
| 09 | 1.378 | -6.625 | -3.552 | -5.831 |
| 10 | 0.257 | -0.079 | -1.769 | 0.478 |
| 11 | 0.075 | -0.619 | 0.592 | -0.551 |
| 12 | 0.72 | -0.584 | -0.181 | -0.591 |
| 13 | -0.011 | -0.118 | 0.485 | -0.696 |
| 14 | -0.243 | -0.028 | 0.589 | -0.817 |
| 15 | -0.534 | -0.845 | 0.224 | 0.55 |
| 16 | -0.705 | 0.347 | 0.073 | 0.015 |
| 17 | 0.337 | -0.26 | -0.123 | -0.058 |
| P-value | Threshold |
|---|---|
| 0.001 | 2.34251 |
| 0.0005 | 3.99456 |
| 0.0001 | 7.19666 |