| Motif | SOX9.H12RSNP.1.PS.A |
| Gene (human) | SOX9 (GeneCards) |
| Gene synonyms (human) | |
| Gene (mouse) | Sox9 |
| Gene synonyms (mouse) | Sox-9 |
| LOGO |  |
| LOGO (reverse complement) |  |
| Motif subtype | 1 |
| Quality | A |
| Motif | SOX9.H12RSNP.1.PS.A |
| Gene (human) | SOX9 (GeneCards) |
| Gene synonyms (human) | |
| Gene (mouse) | Sox9 |
| Gene synonyms (mouse) | Sox-9 |
| LOGO | |
| LOGO (reverse complement) | |
| Motif subtype | 1 |
| Quality | A |
| Motif length | 10 |
| Consensus | nbhATTGTKn |
| GC content | 34.52% |
| Information content (bits; total / per base) | 11.019 / 1.102 |
| Data sources | ChIP-Seq + HT-SELEX |
| Aligned words | 7326 |
| 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 | 1 (7) | 0.512 | 0.569 | 0.389 | 0.447 | 0.422 | 0.538 | 1.009 | 1.334 | 13.328 | 21.959 |
| Mouse | 6 (41) | 0.615 | 0.713 | 0.455 | 0.563 | 0.605 | 0.727 | 1.479 | 1.991 | 46.569 | 200.0 |
| HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
|---|---|---|---|---|---|---|---|
| Non-Methyl HT-SELEX, 4 experiments | median | 0.73 | 0.703 | 0.666 | 0.651 | 0.598 | 0.598 |
| best | 0.908 | 0.876 | 0.818 | 0.777 | 0.744 | 0.712 | |
| rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
|---|---|---|---|---|
| batch 2 | 0.734 | 0.419 | 0.765 | 0.627 |
| TF superclass | Other all-alpha-helical DNA-binding domains {4} (TFClass) |
| TF class | High-mobility group (HMG) domain factors {4.1} (TFClass) |
| TF family | SOX-related {4.1.1} (TFClass) |
| TF subfamily | Group E {4.1.1.5} (TFClass) |
| TFClass ID | TFClass: 4.1.1.5.2 |
| HGNC | HGNC:11204 |
| MGI | MGI:98371 |
| EntrezGene (human) | GeneID:6662 (SSTAR profile) |
| EntrezGene (mouse) | GeneID:20682 (SSTAR profile) |
| UniProt ID (human) | SOX9_HUMAN |
| UniProt ID (mouse) | SOX9_MOUSE |
| UniProt AC (human) | P48436 (TFClass) |
| UniProt AC (mouse) | Q04887 (TFClass) |
| GRECO-DB-TF | yes |
| ChIP-Seq | 1 human, 6 mouse |
| HT-SELEX | 4 |
| Methyl-HT-SELEX | 0 |
| PCM | SOX9.H12RSNP.1.PS.A.pcm |
| PWM | SOX9.H12RSNP.1.PS.A.pwm |
| PFM | SOX9.H12RSNP.1.PS.A.pfm |
| Alignment | SOX9.H12RSNP.1.PS.A.words.tsv |
| Threshold to P-value map | SOX9.H12RSNP.1.PS.A.thr |
| Motif in other formats | |
| JASPAR format | SOX9.H12RSNP.1.PS.A_jaspar_format.txt |
| MEME format | SOX9.H12RSNP.1.PS.A_meme_format.meme |
| Transfac format | SOX9.H12RSNP.1.PS.A_transfac_format.txt |
| Homer format | |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 1561.75 | 1842.75 | 1896.75 | 2024.75 |
| 02 | 579.25 | 2919.25 | 1903.25 | 1924.25 |
| 03 | 684.0 | 3341.0 | 384.0 | 2917.0 |
| 04 | 7318.0 | 0.0 | 0.0 | 8.0 |
| 05 | 0.0 | 0.0 | 0.0 | 7326.0 |
| 06 | 0.0 | 0.0 | 0.0 | 7326.0 |
| 07 | 0.0 | 0.0 | 7326.0 | 0.0 |
| 08 | 21.0 | 0.0 | 0.0 | 7305.0 |
| 09 | 814.25 | 955.25 | 1109.25 | 4447.25 |
| 10 | 1330.5 | 2297.5 | 1313.5 | 2384.5 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.213 | 0.252 | 0.259 | 0.276 |
| 02 | 0.079 | 0.398 | 0.26 | 0.263 |
| 03 | 0.093 | 0.456 | 0.052 | 0.398 |
| 04 | 0.999 | 0.0 | 0.0 | 0.001 |
| 05 | 0.0 | 0.0 | 0.0 | 1.0 |
| 06 | 0.0 | 0.0 | 0.0 | 1.0 |
| 07 | 0.0 | 0.0 | 1.0 | 0.0 |
| 08 | 0.003 | 0.0 | 0.0 | 0.997 |
| 09 | 0.111 | 0.13 | 0.151 | 0.607 |
| 10 | 0.182 | 0.314 | 0.179 | 0.325 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | -0.159 | 0.006 | 0.035 | 0.1 |
| 02 | -1.149 | 0.466 | 0.038 | 0.049 |
| 03 | -0.983 | 0.601 | -1.558 | 0.465 |
| 04 | 1.384 | -6.714 | -6.714 | -5.189 |
| 05 | -6.714 | -6.714 | -6.714 | 1.385 |
| 06 | -6.714 | -6.714 | -6.714 | 1.385 |
| 07 | -6.714 | -6.714 | 1.385 | -6.714 |
| 08 | -4.369 | -6.714 | -6.714 | 1.383 |
| 09 | -0.809 | -0.65 | -0.501 | 0.886 |
| 10 | -0.319 | 0.226 | -0.332 | 0.264 |
| P-value | Threshold |
|---|---|
| 0.001 | 2.996855 |
| 0.0005 | 6.011775 |
| 0.0001 | 7.675055 |