Motif | MSX2.H12CORE.1.SM.B |
Gene (human) | MSX2 (GeneCards) |
Gene synonyms (human) | HOX8 |
Gene (mouse) | Msx2 |
Gene synonyms (mouse) | Hox-8.1, Msx-2 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | B |
Motif | MSX2.H12CORE.1.SM.B |
Gene (human) | MSX2 (GeneCards) |
Gene synonyms (human) | HOX8 |
Gene (mouse) | Msx2 |
Gene synonyms (mouse) | Hox-8.1, Msx-2 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | B |
Motif length | 20 |
Consensus | bhhWWddnnnSTAATTASbv |
GC content | 34.61% |
Information content (bits; total / per base) | 14.269 / 0.713 |
Data sources | HT-SELEX + Methyl-HT-SELEX |
Aligned words | 556 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 4 experiments | median | 0.868 | 0.863 | 0.795 | 0.796 | 0.755 | 0.756 |
best | 0.989 | 0.982 | 0.982 | 0.971 | 0.971 | 0.956 | |
Methyl HT-SELEX, 1 experiments | median | 0.984 | 0.974 | 0.973 | 0.958 | 0.957 | 0.937 |
best | 0.984 | 0.974 | 0.973 | 0.958 | 0.957 | 0.937 | |
Non-Methyl HT-SELEX, 3 experiments | median | 0.752 | 0.751 | 0.617 | 0.633 | 0.553 | 0.576 |
best | 0.989 | 0.982 | 0.982 | 0.971 | 0.971 | 0.956 |
rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
---|---|---|---|---|
batch 2 | 0.584 | 0.051 | 0.427 | 0.264 |
TF superclass | Helix-turn-helix domains {3} (TFClass) |
TF class | Homeo domain factors {3.1} (TFClass) |
TF family | NK-related {3.1.2} (TFClass) |
TF subfamily | MSX {3.1.2.11} (TFClass) |
TFClass ID | TFClass: 3.1.2.11.2 |
HGNC | HGNC:7392 |
MGI | MGI:97169 |
EntrezGene (human) | GeneID:4488 (SSTAR profile) |
EntrezGene (mouse) | GeneID:17702 (SSTAR profile) |
UniProt ID (human) | MSX2_HUMAN |
UniProt ID (mouse) | MSX2_MOUSE |
UniProt AC (human) | P35548 (TFClass) |
UniProt AC (mouse) | Q03358 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 0 human, 0 mouse |
HT-SELEX | 3 |
Methyl-HT-SELEX | 1 |
PCM | MSX2.H12CORE.1.SM.B.pcm |
PWM | MSX2.H12CORE.1.SM.B.pwm |
PFM | MSX2.H12CORE.1.SM.B.pfm |
Alignment | MSX2.H12CORE.1.SM.B.words.tsv |
Threshold to P-value map | MSX2.H12CORE.1.SM.B.thr |
Motif in other formats | |
JASPAR format | MSX2.H12CORE.1.SM.B_jaspar_format.txt |
MEME format | MSX2.H12CORE.1.SM.B_meme_format.meme |
Transfac format | MSX2.H12CORE.1.SM.B_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 90.0 | 241.0 | 106.0 | 119.0 |
02 | 304.5 | 117.5 | 52.5 | 81.5 |
03 | 355.0 | 73.0 | 55.0 | 73.0 |
04 | 148.0 | 46.0 | 32.0 | 330.0 |
05 | 118.0 | 40.0 | 37.0 | 361.0 |
06 | 301.0 | 47.0 | 70.0 | 138.0 |
07 | 213.0 | 86.0 | 109.0 | 148.0 |
08 | 156.0 | 112.0 | 115.0 | 173.0 |
09 | 187.0 | 133.0 | 110.0 | 126.0 |
10 | 162.0 | 128.0 | 189.0 | 77.0 |
11 | 39.0 | 328.0 | 108.0 | 81.0 |
12 | 0.0 | 208.0 | 0.0 | 348.0 |
13 | 556.0 | 0.0 | 0.0 | 0.0 |
14 | 556.0 | 0.0 | 0.0 | 0.0 |
15 | 0.0 | 0.0 | 0.0 | 556.0 |
16 | 0.0 | 0.0 | 0.0 | 556.0 |
17 | 491.0 | 0.0 | 65.0 | 0.0 |
18 | 63.0 | 167.0 | 303.0 | 23.0 |
19 | 52.0 | 226.0 | 169.0 | 109.0 |
20 | 95.25 | 143.25 | 232.25 | 85.25 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.162 | 0.433 | 0.191 | 0.214 |
02 | 0.548 | 0.211 | 0.094 | 0.147 |
03 | 0.638 | 0.131 | 0.099 | 0.131 |
04 | 0.266 | 0.083 | 0.058 | 0.594 |
05 | 0.212 | 0.072 | 0.067 | 0.649 |
06 | 0.541 | 0.085 | 0.126 | 0.248 |
07 | 0.383 | 0.155 | 0.196 | 0.266 |
08 | 0.281 | 0.201 | 0.207 | 0.311 |
09 | 0.336 | 0.239 | 0.198 | 0.227 |
10 | 0.291 | 0.23 | 0.34 | 0.138 |
11 | 0.07 | 0.59 | 0.194 | 0.146 |
12 | 0.0 | 0.374 | 0.0 | 0.626 |
13 | 1.0 | 0.0 | 0.0 | 0.0 |
14 | 1.0 | 0.0 | 0.0 | 0.0 |
15 | 0.0 | 0.0 | 0.0 | 1.0 |
16 | 0.0 | 0.0 | 0.0 | 1.0 |
17 | 0.883 | 0.0 | 0.117 | 0.0 |
18 | 0.113 | 0.3 | 0.545 | 0.041 |
19 | 0.094 | 0.406 | 0.304 | 0.196 |
20 | 0.171 | 0.258 | 0.418 | 0.153 |
A | C | G | T | |
---|---|---|---|---|
01 | -0.429 | 0.546 | -0.268 | -0.153 |
02 | 0.778 | -0.166 | -0.955 | -0.526 |
03 | 0.931 | -0.634 | -0.91 | -0.634 |
04 | 0.062 | -1.083 | -1.432 | 0.858 |
05 | -0.162 | -1.218 | -1.293 | 0.947 |
06 | 0.767 | -1.063 | -0.675 | -0.007 |
07 | 0.423 | -0.473 | -0.24 | 0.062 |
08 | 0.114 | -0.213 | -0.187 | 0.217 |
09 | 0.294 | -0.044 | -0.231 | -0.097 |
10 | 0.152 | -0.081 | 0.304 | -0.582 |
11 | -1.242 | 0.852 | -0.249 | -0.532 |
12 | -4.488 | 0.399 | -4.488 | 0.911 |
13 | 1.378 | -4.488 | -4.488 | -4.488 |
14 | 1.378 | -4.488 | -4.488 | -4.488 |
15 | -4.488 | -4.488 | -4.488 | 1.378 |
16 | -4.488 | -4.488 | -4.488 | 1.378 |
17 | 1.254 | -4.488 | -0.747 | -4.488 |
18 | -0.778 | 0.182 | 0.773 | -1.744 |
19 | -0.965 | 0.482 | 0.193 | -0.24 |
20 | -0.373 | 0.03 | 0.509 | -0.482 |
P-value | Threshold |
---|---|
0.001 | 2.88096 |
0.0005 | 4.24216 |
0.0001 | 7.01061 |