| Motif | VDR.H14INVITRO.1.PS.A |
| Gene (human) | VDR (GeneCards) |
| Gene synonyms (human) | NR1I1 |
| Gene (mouse) | Vdr |
| Gene synonyms (mouse) | Nr1i1 |
| LOGO |  |
| LOGO (reverse complement) |  |
| Motif subtype | 1 |
| Quality | A |
| Motif | VDR.H14INVITRO.1.PS.A |
| Gene (human) | VDR (GeneCards) |
| Gene synonyms (human) | NR1I1 |
| Gene (mouse) | Vdr |
| Gene synonyms (mouse) | Nr1i1 |
| LOGO | |
| LOGO (reverse complement) | |
| Motif subtype | 1 |
| Quality | A |
| Motif length | 8 |
| Consensus | GGGTTCAb |
| GC content | 52.64% |
| Information content (bits; total / per base) | 10.166 / 1.271 |
| Data sources | ChIP-Seq + HT-SELEX |
| Aligned words | 1000 |
| Previous names | VDR.H12INVITRO.1.PS.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 | 45 (197) | 0.699 | 0.9 | 0.549 | 0.826 | 0.67 | 0.87 | 1.645 | 2.906 | 62.143 | 446.187 |
| Mouse | 10 (52) | 0.711 | 0.822 | 0.574 | 0.697 | 0.666 | 0.774 | 1.647 | 2.021 | 79.033 | 138.569 |
| HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
|---|---|---|---|---|---|---|---|
| Non-Methyl HT-SELEX, 4 experiments | median | 0.743 | 0.719 | 0.641 | 0.635 | 0.575 | 0.583 |
| best | 0.984 | 0.976 | 0.946 | 0.932 | 0.808 | 0.814 | |
| 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 | VDR (NR1I) {2.1.2.4} (TFClass) |
| TFClass ID | TFClass: 2.1.2.4.1 |
| HGNC | HGNC:12679 |
| MGI | MGI:103076 |
| EntrezGene (human) | GeneID:7421 (SSTAR profile) |
| EntrezGene (mouse) | GeneID:22337 (SSTAR profile) |
| UniProt ID (human) | VDR_HUMAN |
| UniProt ID (mouse) | VDR_MOUSE |
| UniProt AC (human) | P11473 (TFClass) |
| UniProt AC (mouse) | P48281 (TFClass) |
| GRECO-DB-TF | yes |
| ChIP-Seq | 45 human, 10 mouse |
| HT-SELEX | 4 |
| Methyl-HT-SELEX | 0 |
| Genomic HT-SELEX | 0 overall: 0 Lysate, 0 IVT, 0 GFPIVT |
| SMiLE-Seq | 0 |
| PBM | 0 |
| PCM | VDR.H14INVITRO.1.PS.A.pcm |
| PWM | VDR.H14INVITRO.1.PS.A.pwm |
| PFM | VDR.H14INVITRO.1.PS.A.pfm |
| Threshold to P-value map | VDR.H14INVITRO.1.PS.A.thr |
| Motif in other formats | |
| JASPAR format | VDR.H14INVITRO.1.PS.A_jaspar_format.txt |
| MEME format | VDR.H14INVITRO.1.PS.A_meme_format.meme |
| Transfac format | VDR.H14INVITRO.1.PS.A_transfac_format.txt |
| Homer format | |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 228.0 | 15.0 | 745.0 | 12.0 |
| 02 | 321.0 | 0.0 | 676.0 | 3.0 |
| 03 | 5.0 | 0.0 | 994.0 | 1.0 |
| 04 | 2.0 | 5.0 | 290.0 | 703.0 |
| 05 | 7.0 | 22.0 | 49.0 | 922.0 |
| 06 | 8.0 | 957.0 | 8.0 | 27.0 |
| 07 | 970.0 | 12.0 | 9.0 | 9.0 |
| 08 | 155.0 | 225.0 | 204.0 | 416.0 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.228 | 0.015 | 0.745 | 0.012 |
| 02 | 0.321 | 0.0 | 0.676 | 0.003 |
| 03 | 0.005 | 0.0 | 0.994 | 0.001 |
| 04 | 0.002 | 0.005 | 0.29 | 0.703 |
| 05 | 0.007 | 0.022 | 0.049 | 0.922 |
| 06 | 0.008 | 0.957 | 0.008 | 0.027 |
| 07 | 0.97 | 0.012 | 0.009 | 0.009 |
| 08 | 0.155 | 0.225 | 0.204 | 0.416 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | -0.091 | -2.711 | 1.087 | -2.909 |
| 02 | 0.248 | -4.982 | 0.99 | -3.975 |
| 03 | -3.622 | -4.982 | 1.375 | -4.525 |
| 04 | -4.213 | -3.622 | 0.147 | 1.029 |
| 05 | -3.362 | -2.362 | -1.602 | 1.3 |
| 06 | -3.253 | 1.337 | -3.253 | -2.171 |
| 07 | 1.351 | -2.909 | -3.156 | -3.156 |
| 08 | -0.474 | -0.105 | -0.202 | 0.506 |
| P-value | Threshold |
|---|---|
| 0.001 | 4.36317 |
| 0.0005 | 5.465555 |
| 0.0001 | 7.72998 |