| Motif | RFX5.H12INVITRO.1.PSM.A |
| Gene (human) | RFX5 (GeneCards) |
| Gene synonyms (human) | |
| Gene (mouse) | Rfx5 |
| Gene synonyms (mouse) | |
| LOGO |  |
| LOGO (reverse complement) |  |
| Motif subtype | 1 |
| Quality | A |
| Motif | RFX5.H12INVITRO.1.PSM.A |
| Gene (human) | RFX5 (GeneCards) |
| Gene synonyms (human) | |
| Gene (mouse) | Rfx5 |
| Gene synonyms (mouse) | |
| LOGO | |
| LOGO (reverse complement) | |
| Motif subtype | 1 |
| Quality | A |
| Motif length | 18 |
| Consensus | nnbbGTTGCYAdGbndhv |
| GC content | 52.5% |
| Information content (bits; total / per base) | 14.441 / 0.802 |
| Data sources | ChIP-Seq + HT-SELEX + Methyl-HT-SELEX |
| Aligned words | 9893 |
| 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 | 6 (41) | 0.809 | 0.85 | 0.74 | 0.798 | 0.749 | 0.797 | 2.611 | 3.035 | 169.62 | 293.328 |
| HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
|---|---|---|---|---|---|---|---|
| Overall, 4 experiments | median | 0.999 | 0.998 | 0.959 | 0.961 | 0.859 | 0.874 |
| best | 1.0 | 1.0 | 0.999 | 0.998 | 0.997 | 0.995 | |
| Methyl HT-SELEX, 1 experiments | median | 0.998 | 0.998 | 0.995 | 0.993 | 0.981 | 0.975 |
| best | 0.998 | 0.998 | 0.995 | 0.993 | 0.981 | 0.975 | |
| Non-Methyl HT-SELEX, 3 experiments | median | 1.0 | 0.999 | 0.923 | 0.929 | 0.737 | 0.773 |
| best | 1.0 | 1.0 | 0.999 | 0.998 | 0.997 | 0.995 | |
| rSNP benchmarking, ADASTRA | odds-ratio | -log-Fisher's P | Pearson r | Kendall tau |
|---|---|---|---|---|
| # | 0.904 | 0.073 | 0.087 | 0.013 |
| rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
|---|---|---|---|---|
| batch 2 | 0.683 | 0.407 | 0.661 | 0.481 |
| TF superclass | Helix-turn-helix domains {3} (TFClass) |
| TF class | Fork head/winged helix factors {3.3} (TFClass) |
| TF family | RFX {3.3.3} (TFClass) |
| TF subfamily | {3.3.3.0} (TFClass) |
| TFClass ID | TFClass: 3.3.3.0.5 |
| HGNC | HGNC:9986 |
| MGI | MGI:1858421 |
| EntrezGene (human) | GeneID:5993 (SSTAR profile) |
| EntrezGene (mouse) | GeneID:53970 (SSTAR profile) |
| UniProt ID (human) | RFX5_HUMAN |
| UniProt ID (mouse) | RFX5_MOUSE |
| UniProt AC (human) | P48382 (TFClass) |
| UniProt AC (mouse) | Q9JL61 (TFClass) |
| GRECO-DB-TF | yes |
| ChIP-Seq | 6 human, 0 mouse |
| HT-SELEX | 3 |
| Methyl-HT-SELEX | 1 |
| PCM | RFX5.H12INVITRO.1.PSM.A.pcm |
| PWM | RFX5.H12INVITRO.1.PSM.A.pwm |
| PFM | RFX5.H12INVITRO.1.PSM.A.pfm |
| Alignment | RFX5.H12INVITRO.1.PSM.A.words.tsv |
| Threshold to P-value map | RFX5.H12INVITRO.1.PSM.A.thr |
| Motif in other formats | |
| JASPAR format | RFX5.H12INVITRO.1.PSM.A_jaspar_format.txt |
| MEME format | RFX5.H12INVITRO.1.PSM.A_meme_format.meme |
| Transfac format | RFX5.H12INVITRO.1.PSM.A_transfac_format.txt |
| Homer format | |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 3725.5 | 1807.5 | 2124.5 | 2235.5 |
| 02 | 3788.5 | 2024.5 | 1996.5 | 2083.5 |
| 03 | 1150.0 | 3808.0 | 3177.0 | 1758.0 |
| 04 | 473.0 | 5126.0 | 3149.0 | 1145.0 |
| 05 | 32.0 | 6.0 | 9851.0 | 4.0 |
| 06 | 5.0 | 5.0 | 1.0 | 9882.0 |
| 07 | 77.0 | 47.0 | 1.0 | 9768.0 |
| 08 | 832.0 | 6.0 | 8983.0 | 72.0 |
| 09 | 17.0 | 9624.0 | 19.0 | 233.0 |
| 10 | 9.0 | 3645.0 | 49.0 | 6190.0 |
| 11 | 8830.0 | 107.0 | 401.0 | 555.0 |
| 12 | 1443.0 | 862.0 | 2059.0 | 5529.0 |
| 13 | 813.0 | 847.0 | 7989.0 | 244.0 |
| 14 | 841.0 | 2854.0 | 4952.0 | 1246.0 |
| 15 | 1747.0 | 2386.0 | 3770.0 | 1990.0 |
| 16 | 4149.0 | 778.0 | 1543.0 | 3423.0 |
| 17 | 4107.0 | 1708.0 | 1018.0 | 3060.0 |
| 18 | 1655.75 | 3724.75 | 3042.75 | 1469.75 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.377 | 0.183 | 0.215 | 0.226 |
| 02 | 0.383 | 0.205 | 0.202 | 0.211 |
| 03 | 0.116 | 0.385 | 0.321 | 0.178 |
| 04 | 0.048 | 0.518 | 0.318 | 0.116 |
| 05 | 0.003 | 0.001 | 0.996 | 0.0 |
| 06 | 0.001 | 0.001 | 0.0 | 0.999 |
| 07 | 0.008 | 0.005 | 0.0 | 0.987 |
| 08 | 0.084 | 0.001 | 0.908 | 0.007 |
| 09 | 0.002 | 0.973 | 0.002 | 0.024 |
| 10 | 0.001 | 0.368 | 0.005 | 0.626 |
| 11 | 0.893 | 0.011 | 0.041 | 0.056 |
| 12 | 0.146 | 0.087 | 0.208 | 0.559 |
| 13 | 0.082 | 0.086 | 0.808 | 0.025 |
| 14 | 0.085 | 0.288 | 0.501 | 0.126 |
| 15 | 0.177 | 0.241 | 0.381 | 0.201 |
| 16 | 0.419 | 0.079 | 0.156 | 0.346 |
| 17 | 0.415 | 0.173 | 0.103 | 0.309 |
| 18 | 0.167 | 0.377 | 0.308 | 0.149 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.409 | -0.313 | -0.152 | -0.101 |
| 02 | 0.426 | -0.2 | -0.214 | -0.171 |
| 03 | -0.765 | 0.431 | 0.25 | -0.341 |
| 04 | -1.65 | 0.728 | 0.241 | -0.769 |
| 05 | -4.279 | -5.698 | 1.381 | -5.974 |
| 06 | -5.826 | -5.826 | -6.62 | 1.384 |
| 07 | -3.441 | -3.916 | -6.62 | 1.373 |
| 08 | -1.088 | -5.698 | 1.289 | -3.506 |
| 09 | -4.854 | 1.358 | -4.756 | -2.353 |
| 10 | -5.389 | 0.388 | -3.877 | 0.917 |
| 11 | 1.272 | -3.12 | -1.815 | -1.491 |
| 12 | -0.538 | -1.052 | -0.183 | 0.804 |
| 13 | -1.111 | -1.07 | 1.172 | -2.308 |
| 14 | -1.077 | 0.143 | 0.694 | -0.685 |
| 15 | -0.347 | -0.036 | 0.421 | -0.217 |
| 16 | 0.517 | -1.155 | -0.471 | 0.325 |
| 17 | 0.507 | -0.37 | -0.886 | 0.213 |
| 18 | -0.401 | 0.409 | 0.207 | -0.52 |
| P-value | Threshold |
|---|---|
| 0.001 | 2.46556 |
| 0.0005 | 3.86806 |
| 0.0001 | 6.70056 |