Motif | MSX1.H12CORE.1.S.C |
Gene (human) | MSX1 (GeneCards) |
Gene synonyms (human) | HOX7 |
Gene (mouse) | Msx1 |
Gene synonyms (mouse) | Hox7, Hox7.1 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | C |
Motif | MSX1.H12CORE.1.S.C |
Gene (human) | MSX1 (GeneCards) |
Gene synonyms (human) | HOX7 |
Gene (mouse) | Msx1 |
Gene synonyms (mouse) | Hox7, Hox7.1 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | C |
Motif length | 22 |
Consensus | nnvbYAATTAvnnnnhWWWWdn |
GC content | 31.32% |
Information content (bits; total / per base) | 14.17 / 0.644 |
Data sources | HT-SELEX |
Aligned words | 8743 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 8 experiments | median | 0.874 | 0.84 | 0.734 | 0.722 | 0.625 | 0.637 |
best | 0.994 | 0.992 | 0.936 | 0.932 | 0.825 | 0.797 | |
Methyl HT-SELEX, 2 experiments | median | 0.892 | 0.854 | 0.808 | 0.782 | 0.712 | 0.706 |
best | 0.939 | 0.897 | 0.915 | 0.872 | 0.823 | 0.795 | |
Non-Methyl HT-SELEX, 6 experiments | median | 0.874 | 0.84 | 0.734 | 0.722 | 0.625 | 0.637 |
best | 0.994 | 0.992 | 0.936 | 0.932 | 0.825 | 0.797 |
rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
---|---|---|---|---|
batch 2 | 0.735 | 0.435 | 0.705 | 0.532 |
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: 3.1.2.11.1 |
HGNC | HGNC:7391 |
MGI | MGI:97168 |
EntrezGene (human) | GeneID:4487 (SSTAR profile) |
EntrezGene (mouse) | GeneID:17701 (SSTAR profile) |
UniProt ID (human) | MSX1_HUMAN |
UniProt ID (mouse) | MSX1_MOUSE |
UniProt AC (human) | P28360 (TFClass) |
UniProt AC (mouse) | P13297 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 0 human, 0 mouse |
HT-SELEX | 6 |
Methyl-HT-SELEX | 2 |
PCM | MSX1.H12CORE.1.S.C.pcm |
PWM | MSX1.H12CORE.1.S.C.pwm |
PFM | MSX1.H12CORE.1.S.C.pfm |
Alignment | MSX1.H12CORE.1.S.C.words.tsv |
Threshold to P-value map | MSX1.H12CORE.1.S.C.thr |
Motif in other formats | |
JASPAR format | MSX1.H12CORE.1.S.C_jaspar_format.txt |
MEME format | MSX1.H12CORE.1.S.C_meme_format.meme |
Transfac format | MSX1.H12CORE.1.S.C_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 2926.75 | 1427.75 | 1898.75 | 2489.75 |
02 | 2674.5 | 1911.5 | 2712.5 | 1444.5 |
03 | 3533.0 | 1613.0 | 2349.0 | 1248.0 |
04 | 841.0 | 3733.0 | 3138.0 | 1031.0 |
05 | 14.0 | 5179.0 | 19.0 | 3531.0 |
06 | 8699.0 | 17.0 | 26.0 | 1.0 |
07 | 8742.0 | 0.0 | 1.0 | 0.0 |
08 | 0.0 | 0.0 | 0.0 | 8743.0 |
09 | 0.0 | 22.0 | 1.0 | 8720.0 |
10 | 8411.0 | 2.0 | 325.0 | 5.0 |
11 | 3310.0 | 1628.0 | 3004.0 | 801.0 |
12 | 1973.0 | 2887.0 | 1856.0 | 2027.0 |
13 | 2556.0 | 1716.0 | 2188.0 | 2283.0 |
14 | 3125.0 | 2124.0 | 1693.0 | 1801.0 |
15 | 2026.0 | 2903.0 | 1805.0 | 2009.0 |
16 | 2075.0 | 3169.0 | 742.0 | 2757.0 |
17 | 5329.0 | 976.0 | 705.0 | 1733.0 |
18 | 5401.0 | 625.0 | 482.0 | 2235.0 |
19 | 2045.0 | 508.0 | 471.0 | 5719.0 |
20 | 2412.0 | 552.0 | 580.0 | 5199.0 |
21 | 4851.5 | 708.5 | 1012.5 | 2170.5 |
22 | 2890.0 | 1589.0 | 1950.0 | 2314.0 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.335 | 0.163 | 0.217 | 0.285 |
02 | 0.306 | 0.219 | 0.31 | 0.165 |
03 | 0.404 | 0.184 | 0.269 | 0.143 |
04 | 0.096 | 0.427 | 0.359 | 0.118 |
05 | 0.002 | 0.592 | 0.002 | 0.404 |
06 | 0.995 | 0.002 | 0.003 | 0.0 |
07 | 1.0 | 0.0 | 0.0 | 0.0 |
08 | 0.0 | 0.0 | 0.0 | 1.0 |
09 | 0.0 | 0.003 | 0.0 | 0.997 |
10 | 0.962 | 0.0 | 0.037 | 0.001 |
11 | 0.379 | 0.186 | 0.344 | 0.092 |
12 | 0.226 | 0.33 | 0.212 | 0.232 |
13 | 0.292 | 0.196 | 0.25 | 0.261 |
14 | 0.357 | 0.243 | 0.194 | 0.206 |
15 | 0.232 | 0.332 | 0.206 | 0.23 |
16 | 0.237 | 0.362 | 0.085 | 0.315 |
17 | 0.61 | 0.112 | 0.081 | 0.198 |
18 | 0.618 | 0.071 | 0.055 | 0.256 |
19 | 0.234 | 0.058 | 0.054 | 0.654 |
20 | 0.276 | 0.063 | 0.066 | 0.595 |
21 | 0.555 | 0.081 | 0.116 | 0.248 |
22 | 0.331 | 0.182 | 0.223 | 0.265 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.292 | -0.425 | -0.141 | 0.13 |
02 | 0.202 | -0.134 | 0.216 | -0.414 |
03 | 0.48 | -0.303 | 0.072 | -0.56 |
04 | -0.953 | 0.535 | 0.361 | -0.75 |
05 | -4.901 | 0.862 | -4.634 | 0.479 |
06 | 1.38 | -4.732 | -4.349 | -6.506 |
07 | 1.385 | -6.871 | -6.506 | -6.871 |
08 | -6.871 | -6.871 | -6.871 | 1.386 |
09 | -6.871 | -4.502 | -6.506 | 1.383 |
10 | 1.347 | -6.239 | -1.9 | -5.707 |
11 | 0.415 | -0.294 | 0.318 | -1.002 |
12 | -0.102 | 0.278 | -0.163 | -0.075 |
13 | 0.156 | -0.242 | 0.001 | 0.043 |
14 | 0.357 | -0.029 | -0.255 | -0.193 |
15 | -0.076 | 0.284 | -0.191 | -0.084 |
16 | -0.052 | 0.371 | -1.078 | 0.232 |
17 | 0.891 | -0.805 | -1.129 | -0.232 |
18 | 0.904 | -1.249 | -1.508 | 0.022 |
19 | -0.066 | -1.456 | -1.531 | 0.961 |
20 | 0.098 | -1.373 | -1.324 | 0.866 |
21 | 0.797 | -1.124 | -0.768 | -0.007 |
22 | 0.279 | -0.318 | -0.114 | 0.057 |
P-value | Threshold |
---|---|
0.001 | 1.89971 |
0.0005 | 3.62356 |
0.0001 | 6.94061 |