Motif | SHOX.H12CORE.0.SM.B |
Gene (human) | SHOX (GeneCards) |
Gene synonyms (human) | PHOG |
Gene (mouse) | |
Gene synonyms (mouse) | |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | B |
Motif | SHOX.H12CORE.0.SM.B |
Gene (human) | SHOX (GeneCards) |
Gene synonyms (human) | PHOG |
Gene (mouse) | |
Gene synonyms (mouse) | |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | B |
Motif length | 19 |
Consensus | nnvbTAATTARnbdddddn |
GC content | 33.24% |
Information content (bits; total / per base) | 13.383 / 0.704 |
Data sources | HT-SELEX + Methyl-HT-SELEX |
Aligned words | 9887 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 4 experiments | median | 0.991 | 0.986 | 0.984 | 0.975 | 0.953 | 0.942 |
best | 0.995 | 0.993 | 0.989 | 0.983 | 0.976 | 0.966 | |
Methyl HT-SELEX, 1 experiments | median | 0.995 | 0.992 | 0.989 | 0.983 | 0.976 | 0.966 |
best | 0.995 | 0.992 | 0.989 | 0.983 | 0.976 | 0.966 | |
Non-Methyl HT-SELEX, 3 experiments | median | 0.988 | 0.98 | 0.98 | 0.968 | 0.94 | 0.936 |
best | 0.995 | 0.993 | 0.988 | 0.983 | 0.966 | 0.949 |
rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
---|---|---|---|---|
batch 2 | 0.772 | 0.619 | 0.707 | 0.545 |
TF superclass | Helix-turn-helix domains {3} (TFClass) |
TF class | Homeo domain factors {3.1} (TFClass) |
TF family | Paired-related HD {3.1.3} (TFClass) |
TF subfamily | SHOX {3.1.3.25} (TFClass) |
TFClass ID | TFClass: 3.1.3.25.1 |
HGNC | HGNC:10853 |
MGI | |
EntrezGene (human) | GeneID:6473 (SSTAR profile) |
EntrezGene (mouse) | |
UniProt ID (human) | SHOX_HUMAN |
UniProt ID (mouse) | |
UniProt AC (human) | O15266 (TFClass) |
UniProt AC (mouse) | |
GRECO-DB-TF | yes |
ChIP-Seq | 0 human, 0 mouse |
HT-SELEX | 3 |
Methyl-HT-SELEX | 1 |
PCM | SHOX.H12CORE.0.SM.B.pcm |
PWM | SHOX.H12CORE.0.SM.B.pwm |
PFM | SHOX.H12CORE.0.SM.B.pfm |
Alignment | SHOX.H12CORE.0.SM.B.words.tsv |
Threshold to P-value map | SHOX.H12CORE.0.SM.B.thr |
Motif in other formats | |
JASPAR format | SHOX.H12CORE.0.SM.B_jaspar_format.txt |
MEME format | SHOX.H12CORE.0.SM.B_meme_format.meme |
Transfac format | SHOX.H12CORE.0.SM.B_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 2216.5 | 2350.5 | 3076.5 | 2243.5 |
02 | 1641.25 | 3611.25 | 2864.25 | 1770.25 |
03 | 1958.0 | 2723.0 | 4550.0 | 656.0 |
04 | 505.0 | 4924.0 | 1982.0 | 2476.0 |
05 | 7.0 | 121.0 | 1.0 | 9758.0 |
06 | 9881.0 | 2.0 | 4.0 | 0.0 |
07 | 9887.0 | 0.0 | 0.0 | 0.0 |
08 | 0.0 | 1.0 | 0.0 | 9886.0 |
09 | 1.0 | 11.0 | 29.0 | 9846.0 |
10 | 6255.0 | 19.0 | 3583.0 | 30.0 |
11 | 3636.0 | 1349.0 | 4790.0 | 112.0 |
12 | 2312.0 | 2461.0 | 2019.0 | 3095.0 |
13 | 883.0 | 2028.0 | 1564.0 | 5412.0 |
14 | 3393.0 | 1511.0 | 1546.0 | 3437.0 |
15 | 5888.0 | 1050.0 | 1346.0 | 1603.0 |
16 | 3323.0 | 1136.0 | 1600.0 | 3828.0 |
17 | 2216.0 | 1348.0 | 1457.0 | 4866.0 |
18 | 3303.75 | 989.75 | 2252.75 | 3340.75 |
19 | 3111.0 | 1568.0 | 2573.0 | 2635.0 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.224 | 0.238 | 0.311 | 0.227 |
02 | 0.166 | 0.365 | 0.29 | 0.179 |
03 | 0.198 | 0.275 | 0.46 | 0.066 |
04 | 0.051 | 0.498 | 0.2 | 0.25 |
05 | 0.001 | 0.012 | 0.0 | 0.987 |
06 | 0.999 | 0.0 | 0.0 | 0.0 |
07 | 1.0 | 0.0 | 0.0 | 0.0 |
08 | 0.0 | 0.0 | 0.0 | 1.0 |
09 | 0.0 | 0.001 | 0.003 | 0.996 |
10 | 0.633 | 0.002 | 0.362 | 0.003 |
11 | 0.368 | 0.136 | 0.484 | 0.011 |
12 | 0.234 | 0.249 | 0.204 | 0.313 |
13 | 0.089 | 0.205 | 0.158 | 0.547 |
14 | 0.343 | 0.153 | 0.156 | 0.348 |
15 | 0.596 | 0.106 | 0.136 | 0.162 |
16 | 0.336 | 0.115 | 0.162 | 0.387 |
17 | 0.224 | 0.136 | 0.147 | 0.492 |
18 | 0.334 | 0.1 | 0.228 | 0.338 |
19 | 0.315 | 0.159 | 0.26 | 0.267 |
A | C | G | T | |
---|---|---|---|---|
01 | -0.109 | -0.05 | 0.219 | -0.097 |
02 | -0.409 | 0.379 | 0.147 | -0.333 |
03 | -0.233 | 0.097 | 0.61 | -1.324 |
04 | -1.585 | 0.689 | -0.221 | 0.002 |
05 | -5.584 | -2.999 | -6.62 | 1.372 |
06 | 1.385 | -6.355 | -5.973 | -6.981 |
07 | 1.386 | -6.981 | -6.981 | -6.981 |
08 | -6.981 | -6.62 | -6.981 | 1.385 |
09 | -6.62 | -5.226 | -4.37 | 1.381 |
10 | 0.928 | -4.755 | 0.371 | -4.339 |
11 | 0.386 | -0.605 | 0.661 | -3.075 |
12 | -0.067 | -0.004 | -0.202 | 0.225 |
13 | -1.028 | -0.198 | -0.457 | 0.783 |
14 | 0.317 | -0.492 | -0.469 | 0.329 |
15 | 0.867 | -0.855 | -0.607 | -0.433 |
16 | 0.296 | -0.776 | -0.434 | 0.437 |
17 | -0.109 | -0.606 | -0.528 | 0.677 |
18 | 0.29 | -0.914 | -0.093 | 0.301 |
19 | 0.23 | -0.455 | 0.04 | 0.064 |
P-value | Threshold |
---|---|
0.001 | 1.87816 |
0.0005 | 3.61391 |
0.0001 | 7.36391 |