| Motif | RFX1.H13RSNP.1.PSM.A |
| Gene (human) | RFX1 (GeneCards) |
| Gene synonyms (human) | |
| Gene (mouse) | Rfx1 |
| Gene synonyms (mouse) | |
| LOGO |  |
| LOGO (reverse complement) |  |
| Motif subtype | 1 |
| Quality | A |
| Motif | RFX1.H13RSNP.1.PSM.A |
| Gene (human) | RFX1 (GeneCards) |
| Gene synonyms (human) | |
| Gene (mouse) | Rfx1 |
| Gene synonyms (mouse) | |
| LOGO | |
| LOGO (reverse complement) | |
| Motif subtype | 1 |
| Quality | A |
| Motif length | 18 |
| Consensus | nbGTTGCCATGGYAACbn |
| GC content | 53.99% |
| Information content (bits; total / per base) | 23.794 / 1.322 |
| Data sources | ChIP-Seq + HT-SELEX + Methyl-HT-SELEX |
| Aligned words | 2349 |
| Previous names | RFX1.H12RSNP.1.PSM.A |
| 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 (35) | 0.925 | 0.967 | 0.909 | 0.962 | 0.907 | 0.957 | 6.357 | 8.734 | 586.009 | 886.509 |
| Mouse | 4 (20) | 0.924 | 0.945 | 0.901 | 0.929 | 0.902 | 0.937 | 6.166 | 7.399 | 559.267 | 781.009 |
| HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
|---|---|---|---|---|---|---|---|
| Overall, 4 experiments | median | 0.999 | 0.998 | 0.962 | 0.961 | 0.873 | 0.883 |
| best | 1 | 1 | 1.0 | 1.0 | 0.991 | 0.991 | |
| Methyl HT-SELEX, 2 experiments | median | 0.999 | 0.998 | 0.962 | 0.961 | 0.873 | 0.883 |
| best | 1 | 1 | 1.0 | 1.0 | 0.983 | 0.983 | |
| Non-Methyl HT-SELEX, 2 experiments | median | 0.873 | 0.869 | 0.817 | 0.818 | 0.783 | 0.787 |
| best | 1 | 1 | 1.0 | 1.0 | 0.991 | 0.991 | |
| rSNP benchmarking, ADASTRA | odds-ratio | -log-Fisher's P | Pearson r | Kendall tau |
|---|---|---|---|---|
| # | 2.552 | 7.439 | 0.188 | 0.087 |
| rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
|---|---|---|---|---|
| batch 1 | 0.921 | 0.652 | 0.936 | 0.635 |
| batch 2 | 0.9 | 0.842 | 0.876 | 0.593 |
| 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: 3.3.3.0.1 |
| HGNC | HGNC:9982 |
| MGI | MGI:105982 |
| EntrezGene (human) | GeneID:5989 (SSTAR profile) |
| EntrezGene (mouse) | GeneID:19724 (SSTAR profile) |
| UniProt ID (human) | RFX1_HUMAN |
| UniProt ID (mouse) | RFX1_MOUSE |
| UniProt AC (human) | P22670 (TFClass) |
| UniProt AC (mouse) | P48377 (TFClass) |
| GRECO-DB-TF | yes |
| ChIP-Seq | 5 human, 4 mouse |
| HT-SELEX | 2 |
| Methyl-HT-SELEX | 2 |
| Genomic HT-SELEX | 0 overall: 0 Lysate, 0 IVT, 0 GFPIVT |
| SMiLE-Seq | 0 |
| PBM | 0 |
| PCM | RFX1.H13RSNP.1.PSM.A.pcm |
| PWM | RFX1.H13RSNP.1.PSM.A.pwm |
| PFM | RFX1.H13RSNP.1.PSM.A.pfm |
| Threshold to P-value map | RFX1.H13RSNP.1.PSM.A.thr |
| Motif in other formats | |
| JASPAR format | RFX1.H13RSNP.1.PSM.A_jaspar_format.txt |
| MEME format | RFX1.H13RSNP.1.PSM.A_meme_format.meme |
| Transfac format | RFX1.H13RSNP.1.PSM.A_transfac_format.txt |
| Homer format | |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 413.75 | 641.75 | 626.75 | 666.75 |
| 02 | 153.75 | 1141.75 | 594.75 | 458.75 |
| 03 | 9.0 | 2.0 | 2337.0 | 1.0 |
| 04 | 3.0 | 0.0 | 4.0 | 2342.0 |
| 05 | 33.0 | 62.0 | 2.0 | 2252.0 |
| 06 | 199.0 | 1.0 | 2143.0 | 6.0 |
| 07 | 1.0 | 2000.0 | 0.0 | 348.0 |
| 08 | 0.0 | 2096.0 | 1.0 | 252.0 |
| 09 | 2344.0 | 1.0 | 0.0 | 4.0 |
| 10 | 3.0 | 5.0 | 3.0 | 2338.0 |
| 11 | 41.0 | 3.0 | 2305.0 | 0.0 |
| 12 | 8.0 | 4.0 | 2334.0 | 3.0 |
| 13 | 82.0 | 1086.0 | 14.0 | 1167.0 |
| 14 | 1762.0 | 8.0 | 56.0 | 523.0 |
| 15 | 2303.0 | 7.0 | 29.0 | 10.0 |
| 16 | 3.0 | 2293.0 | 3.0 | 50.0 |
| 17 | 192.5 | 809.5 | 963.5 | 383.5 |
| 18 | 591.75 | 563.75 | 687.75 | 505.75 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.176 | 0.273 | 0.267 | 0.284 |
| 02 | 0.065 | 0.486 | 0.253 | 0.195 |
| 03 | 0.004 | 0.001 | 0.995 | 0.0 |
| 04 | 0.001 | 0.0 | 0.002 | 0.997 |
| 05 | 0.014 | 0.026 | 0.001 | 0.959 |
| 06 | 0.085 | 0.0 | 0.912 | 0.003 |
| 07 | 0.0 | 0.851 | 0.0 | 0.148 |
| 08 | 0.0 | 0.892 | 0.0 | 0.107 |
| 09 | 0.998 | 0.0 | 0.0 | 0.002 |
| 10 | 0.001 | 0.002 | 0.001 | 0.995 |
| 11 | 0.017 | 0.001 | 0.981 | 0.0 |
| 12 | 0.003 | 0.002 | 0.994 | 0.001 |
| 13 | 0.035 | 0.462 | 0.006 | 0.497 |
| 14 | 0.75 | 0.003 | 0.024 | 0.223 |
| 15 | 0.98 | 0.003 | 0.012 | 0.004 |
| 16 | 0.001 | 0.976 | 0.001 | 0.021 |
| 17 | 0.082 | 0.345 | 0.41 | 0.163 |
| 18 | 0.252 | 0.24 | 0.293 | 0.215 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | -0.349 | 0.088 | 0.065 | 0.127 |
| 02 | -1.331 | 0.663 | 0.013 | -0.246 |
| 03 | -3.986 | -5.007 | 1.379 | -5.3 |
| 04 | -4.781 | -5.716 | -4.597 | 1.381 |
| 05 | -2.825 | -2.221 | -5.007 | 1.342 |
| 06 | -1.076 | -5.3 | 1.292 | -4.307 |
| 07 | -5.3 | 1.223 | -5.716 | -0.521 |
| 08 | -5.716 | 1.27 | -5.3 | -0.842 |
| 09 | 1.382 | -5.3 | -5.716 | -4.597 |
| 10 | -4.781 | -4.441 | -4.781 | 1.379 |
| 11 | -2.619 | -4.781 | 1.365 | -5.716 |
| 12 | -4.082 | -4.597 | 1.377 | -4.781 |
| 13 | -1.949 | 0.613 | -3.61 | 0.685 |
| 14 | 1.097 | -4.082 | -2.319 | -0.115 |
| 15 | 1.364 | -4.188 | -2.947 | -3.899 |
| 16 | -4.781 | 1.36 | -4.781 | -2.429 |
| 17 | -1.109 | 0.32 | 0.494 | -0.424 |
| 18 | 0.008 | -0.041 | 0.157 | -0.149 |
| P-value | Threshold |
|---|---|
| 0.001 | -5.68254 |
| 0.0005 | -3.67974 |
| 0.0001 | 0.54351 |