| Motif | SPDEF.H14RSNP.1.SM.B |
| Gene (human) | SPDEF (GeneCards) |
| Gene synonyms (human) | PDEF, PSE |
| Gene (mouse) | Spdef |
| Gene synonyms (mouse) | Pdef, Pse |
| LOGO |  |
| LOGO (reverse complement) |  |
| Motif subtype | 1 |
| Quality | B |
| Motif | SPDEF.H14RSNP.1.SM.B |
| Gene (human) | SPDEF (GeneCards) |
| Gene synonyms (human) | PDEF, PSE |
| Gene (mouse) | Spdef |
| Gene synonyms (mouse) | Pdef, Pse |
| LOGO | |
| LOGO (reverse complement) | |
| Motif subtype | 1 |
| Quality | B |
| Motif length | 20 |
| Consensus | nWhCCGGATGTdnnnhhbbn |
| GC content | 54.97% |
| Information content (bits; total / per base) | 14.681 / 0.734 |
| Data sources | HT-SELEX + Methyl-HT-SELEX |
| Aligned words | 840 |
| Previous names | SPDEF.H12RSNP.1.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 | 2 (12) | 0.804 | 0.876 | 0.712 | 0.792 | 0.765 | 0.844 | 2.468 | 2.971 | 55.308 | 111.284 |
| HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
|---|---|---|---|---|---|---|---|
| Overall, 8 experiments | median | 0.726 | 0.728 | 0.605 | 0.621 | 0.556 | 0.57 |
| best | 0.999 | 0.998 | 0.995 | 0.993 | 0.944 | 0.943 | |
| Methyl HT-SELEX, 2 experiments | median | 0.85 | 0.852 | 0.777 | 0.784 | 0.687 | 0.703 |
| best | 0.993 | 0.99 | 0.97 | 0.961 | 0.837 | 0.846 | |
| Non-Methyl HT-SELEX, 6 experiments | median | 0.701 | 0.694 | 0.604 | 0.608 | 0.556 | 0.565 |
| best | 0.999 | 0.998 | 0.995 | 0.993 | 0.944 | 0.943 | |
| rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
|---|---|---|---|---|
| batch 1 | 0.748 | 0.608 | 0.693 | 0.465 |
| TF superclass | Helix-turn-helix domains {3} (TFClass) |
| TF class | Tryptophan cluster factors {3.5} (TFClass) |
| TF family | Ets-related {3.5.2} (TFClass) |
| TF subfamily | SPDEF-like {3.5.2.7} (TFClass) |
| TFClass ID | TFClass: 3.5.2.7.1 |
| HGNC | HGNC:17257 |
| MGI | MGI:1353422 |
| EntrezGene (human) | GeneID:25803 (SSTAR profile) |
| EntrezGene (mouse) | GeneID:30051 (SSTAR profile) |
| UniProt ID (human) | SPDEF_HUMAN |
| UniProt ID (mouse) | SPDEF_MOUSE |
| UniProt AC (human) | O95238 (TFClass) |
| UniProt AC (mouse) | Q9WTP3 (TFClass) |
| GRECO-DB-TF | yes |
| ChIP-Seq | 2 human, 0 mouse |
| HT-SELEX | 6 |
| Methyl-HT-SELEX | 2 |
| Genomic HT-SELEX | 0 overall: 0 Lysate, 0 IVT, 0 GFPIVT |
| SMiLE-Seq | 0 |
| PBM | 0 |
| PCM | SPDEF.H14RSNP.1.SM.B.pcm |
| PWM | SPDEF.H14RSNP.1.SM.B.pwm |
| PFM | SPDEF.H14RSNP.1.SM.B.pfm |
| Threshold to P-value map | SPDEF.H14RSNP.1.SM.B.thr |
| Motif in other formats | |
| JASPAR format | SPDEF.H14RSNP.1.SM.B_jaspar_format.txt |
| MEME format | SPDEF.H14RSNP.1.SM.B_meme_format.meme |
| Transfac format | SPDEF.H14RSNP.1.SM.B_transfac_format.txt |
| Homer format | |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 253.5 | 168.5 | 250.5 | 167.5 |
| 02 | 504.75 | 45.75 | 87.75 | 201.75 |
| 03 | 342.0 | 267.0 | 106.0 | 125.0 |
| 04 | 34.0 | 748.0 | 56.0 | 2.0 |
| 05 | 222.0 | 616.0 | 2.0 | 0.0 |
| 06 | 0.0 | 0.0 | 840.0 | 0.0 |
| 07 | 0.0 | 1.0 | 839.0 | 0.0 |
| 08 | 840.0 | 0.0 | 0.0 | 0.0 |
| 09 | 17.0 | 4.0 | 0.0 | 819.0 |
| 10 | 126.0 | 17.0 | 696.0 | 1.0 |
| 11 | 4.0 | 209.0 | 7.0 | 620.0 |
| 12 | 286.0 | 87.0 | 256.0 | 211.0 |
| 13 | 241.0 | 261.0 | 228.0 | 110.0 |
| 14 | 290.0 | 230.0 | 182.0 | 138.0 |
| 15 | 301.0 | 154.0 | 140.0 | 245.0 |
| 16 | 154.0 | 304.0 | 109.0 | 273.0 |
| 17 | 135.0 | 463.0 | 89.0 | 153.0 |
| 18 | 77.0 | 354.0 | 274.0 | 135.0 |
| 19 | 80.5 | 194.5 | 465.5 | 99.5 |
| 20 | 202.75 | 161.75 | 321.75 | 153.75 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.302 | 0.201 | 0.298 | 0.199 |
| 02 | 0.601 | 0.054 | 0.104 | 0.24 |
| 03 | 0.407 | 0.318 | 0.126 | 0.149 |
| 04 | 0.04 | 0.89 | 0.067 | 0.002 |
| 05 | 0.264 | 0.733 | 0.002 | 0.0 |
| 06 | 0.0 | 0.0 | 1.0 | 0.0 |
| 07 | 0.0 | 0.001 | 0.999 | 0.0 |
| 08 | 1.0 | 0.0 | 0.0 | 0.0 |
| 09 | 0.02 | 0.005 | 0.0 | 0.975 |
| 10 | 0.15 | 0.02 | 0.829 | 0.001 |
| 11 | 0.005 | 0.249 | 0.008 | 0.738 |
| 12 | 0.34 | 0.104 | 0.305 | 0.251 |
| 13 | 0.287 | 0.311 | 0.271 | 0.131 |
| 14 | 0.345 | 0.274 | 0.217 | 0.164 |
| 15 | 0.358 | 0.183 | 0.167 | 0.292 |
| 16 | 0.183 | 0.362 | 0.13 | 0.325 |
| 17 | 0.161 | 0.551 | 0.106 | 0.182 |
| 18 | 0.092 | 0.421 | 0.326 | 0.161 |
| 19 | 0.096 | 0.232 | 0.554 | 0.118 |
| 20 | 0.241 | 0.193 | 0.383 | 0.183 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.187 | -0.218 | 0.175 | -0.224 |
| 02 | 0.872 | -1.496 | -0.862 | -0.04 |
| 03 | 0.485 | 0.238 | -0.676 | -0.513 |
| 04 | -1.78 | 1.265 | -1.3 | -4.051 |
| 05 | 0.055 | 1.071 | -4.051 | -4.834 |
| 06 | -4.834 | -4.834 | 1.38 | -4.834 |
| 07 | -4.834 | -4.368 | 1.379 | -4.834 |
| 08 | 1.38 | -4.834 | -4.834 | -4.834 |
| 09 | -2.427 | -3.618 | -4.834 | 1.355 |
| 10 | -0.506 | -2.427 | 1.193 | -4.368 |
| 11 | -3.618 | -0.005 | -3.194 | 1.077 |
| 12 | 0.307 | -0.87 | 0.197 | 0.005 |
| 13 | 0.137 | 0.216 | 0.082 | -0.639 |
| 14 | 0.321 | 0.09 | -0.142 | -0.416 |
| 15 | 0.358 | -0.307 | -0.401 | 0.153 |
| 16 | -0.307 | 0.367 | -0.648 | 0.261 |
| 17 | -0.437 | 0.786 | -0.848 | -0.314 |
| 18 | -0.99 | 0.519 | 0.264 | -0.437 |
| 19 | -0.946 | -0.076 | 0.792 | -0.738 |
| 20 | -0.035 | -0.259 | 0.424 | -0.309 |
| P-value | Threshold |
|---|---|
| 0.001 | 2.57616 |
| 0.0005 | 3.91411 |
| 0.0001 | 6.71091 |