Motif | VAX2.H12CORE.0.SM.B |
Gene (human) | VAX2 (GeneCards) |
Gene synonyms (human) | |
Gene (mouse) | Vax2 |
Gene synonyms (mouse) | Vex |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | B |
Motif | VAX2.H12CORE.0.SM.B |
Gene (human) | VAX2 (GeneCards) |
Gene synonyms (human) | |
Gene (mouse) | Vax2 |
Gene synonyms (mouse) | Vex |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | B |
Motif length | 13 |
Consensus | nvvTMATTARbbn |
GC content | 39.14% |
Information content (bits; total / per base) | 11.954 / 0.92 |
Data sources | HT-SELEX + Methyl-HT-SELEX |
Aligned words | 9048 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 6 experiments | median | 0.974 | 0.959 | 0.946 | 0.923 | 0.875 | 0.84 |
best | 0.987 | 0.977 | 0.978 | 0.964 | 0.958 | 0.939 | |
Methyl HT-SELEX, 2 experiments | median | 0.963 | 0.939 | 0.947 | 0.918 | 0.917 | 0.886 |
best | 0.987 | 0.977 | 0.978 | 0.964 | 0.958 | 0.939 | |
Non-Methyl HT-SELEX, 4 experiments | median | 0.974 | 0.959 | 0.946 | 0.923 | 0.868 | 0.84 |
best | 0.985 | 0.974 | 0.975 | 0.96 | 0.955 | 0.935 |
rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
---|---|---|---|---|
batch 1 | 0.994 | 0.968 | 0.961 | 0.64 |
batch 2 | 0.719 | 0.555 | 0.751 | 0.529 |
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 | VAX {3.1.2.22} (TFClass) |
TFClass ID | TFClass: 3.1.2.22.2 |
HGNC | HGNC:12661 |
MGI | MGI:1346018 |
EntrezGene (human) | GeneID:25806 (SSTAR profile) |
EntrezGene (mouse) | GeneID:24113 (SSTAR profile) |
UniProt ID (human) | VAX2_HUMAN |
UniProt ID (mouse) | VAX2_MOUSE |
UniProt AC (human) | Q9UIW0 (TFClass) |
UniProt AC (mouse) | Q9WTP9 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 0 human, 0 mouse |
HT-SELEX | 4 |
Methyl-HT-SELEX | 2 |
PCM | VAX2.H12CORE.0.SM.B.pcm |
PWM | VAX2.H12CORE.0.SM.B.pwm |
PFM | VAX2.H12CORE.0.SM.B.pfm |
Alignment | VAX2.H12CORE.0.SM.B.words.tsv |
Threshold to P-value map | VAX2.H12CORE.0.SM.B.thr |
Motif in other formats | |
JASPAR format | VAX2.H12CORE.0.SM.B_jaspar_format.txt |
MEME format | VAX2.H12CORE.0.SM.B_meme_format.meme |
Transfac format | VAX2.H12CORE.0.SM.B_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 2363.25 | 1939.25 | 2905.25 | 1840.25 |
02 | 1475.25 | 3056.25 | 3294.25 | 1222.25 |
03 | 984.0 | 3220.0 | 4165.0 | 679.0 |
04 | 33.0 | 1054.0 | 27.0 | 7934.0 |
05 | 5659.0 | 3319.0 | 58.0 | 12.0 |
06 | 9048.0 | 0.0 | 0.0 | 0.0 |
07 | 0.0 | 0.0 | 0.0 | 9048.0 |
08 | 0.0 | 0.0 | 0.0 | 9048.0 |
09 | 9048.0 | 0.0 | 0.0 | 0.0 |
10 | 2564.0 | 920.0 | 5459.0 | 105.0 |
11 | 296.0 | 3930.0 | 2209.0 | 2613.0 |
12 | 1487.25 | 1857.25 | 4066.25 | 1637.25 |
13 | 2162.25 | 2401.25 | 2160.25 | 2324.25 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.261 | 0.214 | 0.321 | 0.203 |
02 | 0.163 | 0.338 | 0.364 | 0.135 |
03 | 0.109 | 0.356 | 0.46 | 0.075 |
04 | 0.004 | 0.116 | 0.003 | 0.877 |
05 | 0.625 | 0.367 | 0.006 | 0.001 |
06 | 1.0 | 0.0 | 0.0 | 0.0 |
07 | 0.0 | 0.0 | 0.0 | 1.0 |
08 | 0.0 | 0.0 | 0.0 | 1.0 |
09 | 1.0 | 0.0 | 0.0 | 0.0 |
10 | 0.283 | 0.102 | 0.603 | 0.012 |
11 | 0.033 | 0.434 | 0.244 | 0.289 |
12 | 0.164 | 0.205 | 0.449 | 0.181 |
13 | 0.239 | 0.265 | 0.239 | 0.257 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.044 | -0.154 | 0.25 | -0.206 |
02 | -0.427 | 0.301 | 0.376 | -0.615 |
03 | -0.831 | 0.353 | 0.61 | -1.201 |
04 | -4.162 | -0.763 | -4.348 | 1.254 |
05 | 0.916 | 0.383 | -3.626 | -5.066 |
06 | 1.386 | -6.902 | -6.902 | -6.902 |
07 | -6.902 | -6.902 | -6.902 | 1.386 |
08 | -6.902 | -6.902 | -6.902 | 1.386 |
09 | 1.386 | -6.902 | -6.902 | -6.902 |
10 | 0.125 | -0.898 | 0.88 | -3.05 |
11 | -2.027 | 0.552 | -0.024 | 0.144 |
12 | -0.419 | -0.197 | 0.586 | -0.323 |
13 | -0.045 | 0.06 | -0.046 | 0.027 |
P-value | Threshold |
---|---|
0.001 | 2.88136 |
0.0005 | 4.986625 |
0.0001 | 7.78812 |