Motif | ARX.H12RSNP.1.SM.B |
Gene (human) | ARX (GeneCards) |
Gene synonyms (human) | |
Gene (mouse) | Arx |
Gene synonyms (mouse) | |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | B |
Motif | ARX.H12RSNP.1.SM.B |
Gene (human) | ARX (GeneCards) |
Gene synonyms (human) | |
Gene (mouse) | Arx |
Gene synonyms (mouse) | |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | B |
Motif length | 12 |
Consensus | nnYRATTARbbn |
GC content | 35.72% |
Information content (bits; total / per base) | 10.658 / 0.888 |
Data sources | HT-SELEX + Methyl-HT-SELEX |
Aligned words | 8668 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 6 experiments | median | 0.981 | 0.967 | 0.974 | 0.956 | 0.956 | 0.934 |
best | 0.988 | 0.981 | 0.985 | 0.974 | 0.975 | 0.962 | |
Methyl HT-SELEX, 1 experiments | median | 0.962 | 0.936 | 0.948 | 0.917 | 0.925 | 0.889 |
best | 0.962 | 0.936 | 0.948 | 0.917 | 0.925 | 0.889 | |
Non-Methyl HT-SELEX, 5 experiments | median | 0.985 | 0.975 | 0.978 | 0.964 | 0.956 | 0.937 |
best | 0.988 | 0.981 | 0.985 | 0.974 | 0.975 | 0.962 |
rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
---|---|---|---|---|
batch 2 | 0.75 | 0.516 | 0.74 | 0.521 |
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 | ARX {3.1.3.3} (TFClass) |
TFClass ID | TFClass: 3.1.3.3.1 |
HGNC | HGNC:18060 |
MGI | MGI:1097716 |
EntrezGene (human) | GeneID:170302 (SSTAR profile) |
EntrezGene (mouse) | GeneID:11878 (SSTAR profile) |
UniProt ID (human) | ARX_HUMAN |
UniProt ID (mouse) | ARX_MOUSE |
UniProt AC (human) | Q96QS3 (TFClass) |
UniProt AC (mouse) | O35085 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 0 human, 0 mouse |
HT-SELEX | 5 |
Methyl-HT-SELEX | 1 |
PCM | ARX.H12RSNP.1.SM.B.pcm |
PWM | ARX.H12RSNP.1.SM.B.pwm |
PFM | ARX.H12RSNP.1.SM.B.pfm |
Alignment | ARX.H12RSNP.1.SM.B.words.tsv |
Threshold to P-value map | ARX.H12RSNP.1.SM.B.thr |
Motif in other formats | |
JASPAR format | ARX.H12RSNP.1.SM.B_jaspar_format.txt |
MEME format | ARX.H12RSNP.1.SM.B_meme_format.meme |
Transfac format | ARX.H12RSNP.1.SM.B_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 2122.25 | 2363.25 | 2172.25 | 2010.25 |
02 | 1024.0 | 2697.0 | 2570.0 | 2377.0 |
03 | 410.0 | 3008.0 | 548.0 | 4702.0 |
04 | 6430.0 | 480.0 | 1727.0 | 31.0 |
05 | 8668.0 | 0.0 | 0.0 | 0.0 |
06 | 0.0 | 0.0 | 0.0 | 8668.0 |
07 | 0.0 | 0.0 | 0.0 | 8668.0 |
08 | 8668.0 | 0.0 | 0.0 | 0.0 |
09 | 2234.0 | 681.0 | 5725.0 | 28.0 |
10 | 628.0 | 3266.0 | 2602.0 | 2172.0 |
11 | 987.25 | 1884.25 | 3357.25 | 2439.25 |
12 | 2013.0 | 2132.0 | 1939.0 | 2584.0 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.245 | 0.273 | 0.251 | 0.232 |
02 | 0.118 | 0.311 | 0.296 | 0.274 |
03 | 0.047 | 0.347 | 0.063 | 0.542 |
04 | 0.742 | 0.055 | 0.199 | 0.004 |
05 | 1.0 | 0.0 | 0.0 | 0.0 |
06 | 0.0 | 0.0 | 0.0 | 1.0 |
07 | 0.0 | 0.0 | 0.0 | 1.0 |
08 | 1.0 | 0.0 | 0.0 | 0.0 |
09 | 0.258 | 0.079 | 0.66 | 0.003 |
10 | 0.072 | 0.377 | 0.3 | 0.251 |
11 | 0.114 | 0.217 | 0.387 | 0.281 |
12 | 0.232 | 0.246 | 0.224 | 0.298 |
A | C | G | T | |
---|---|---|---|---|
01 | -0.021 | 0.087 | 0.002 | -0.075 |
02 | -0.748 | 0.219 | 0.17 | 0.092 |
03 | -1.66 | 0.328 | -1.372 | 0.774 |
04 | 1.087 | -1.504 | -0.227 | -4.178 |
05 | 1.386 | -6.864 | -6.864 | -6.864 |
06 | -6.864 | -6.864 | -6.864 | 1.386 |
07 | -6.864 | -6.864 | -6.864 | 1.386 |
08 | 1.386 | -6.864 | -6.864 | -6.864 |
09 | 0.03 | -1.155 | 0.971 | -4.272 |
10 | -1.236 | 0.41 | 0.183 | 0.002 |
11 | -0.785 | -0.14 | 0.437 | 0.118 |
12 | -0.074 | -0.016 | -0.111 | 0.176 |
P-value | Threshold |
---|---|
0.001 | 4.709215 |
0.0005 | 5.978815 |
0.0001 | 7.743005 |