Motif | CDX4.H12RSNP.1.M.C |
Gene (human) | CDX4 (GeneCards) |
Gene synonyms (human) | |
Gene (mouse) | Cdx4 |
Gene synonyms (mouse) | Cdx-4 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | C |
Motif | CDX4.H12RSNP.1.M.C |
Gene (human) | CDX4 (GeneCards) |
Gene synonyms (human) | |
Gene (mouse) | Cdx4 |
Gene synonyms (mouse) | Cdx-4 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | C |
Motif length | 13 |
Consensus | ndTTTACGACvbn |
GC content | 43.1% |
Information content (bits; total / per base) | 14.544 / 1.119 |
Data sources | Methyl-HT-SELEX |
Aligned words | 6856 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 2 experiments | median | 0.985 | 0.979 | 0.924 | 0.917 | 0.831 | 0.837 |
best | 0.989 | 0.98 | 0.98 | 0.969 | 0.96 | 0.945 | |
Methyl HT-SELEX, 1 experiments | median | 0.982 | 0.977 | 0.868 | 0.865 | 0.701 | 0.729 |
best | 0.982 | 0.977 | 0.868 | 0.865 | 0.701 | 0.729 | |
Non-Methyl HT-SELEX, 1 experiments | median | 0.989 | 0.98 | 0.98 | 0.969 | 0.96 | 0.945 |
best | 0.989 | 0.98 | 0.98 | 0.969 | 0.96 | 0.945 |
rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
---|---|---|---|---|
batch 2 | 0.724 | 0.529 | 0.648 | 0.429 |
TF superclass | Helix-turn-helix domains {3} (TFClass) |
TF class | Homeo domain factors {3.1} (TFClass) |
TF family | HOX-related {3.1.1} (TFClass) |
TF subfamily | CDX {3.1.1.9} (TFClass) |
TFClass ID | TFClass: 3.1.1.9.3 |
HGNC | HGNC:1808 |
MGI | MGI:88362 |
EntrezGene (human) | GeneID:1046 (SSTAR profile) |
EntrezGene (mouse) | GeneID:12592 (SSTAR profile) |
UniProt ID (human) | CDX4_HUMAN |
UniProt ID (mouse) | CDX4_MOUSE |
UniProt AC (human) | O14627 (TFClass) |
UniProt AC (mouse) | Q07424 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 0 human, 0 mouse |
HT-SELEX | 1 |
Methyl-HT-SELEX | 1 |
PCM | CDX4.H12RSNP.1.M.C.pcm |
PWM | CDX4.H12RSNP.1.M.C.pwm |
PFM | CDX4.H12RSNP.1.M.C.pfm |
Alignment | CDX4.H12RSNP.1.M.C.words.tsv |
Threshold to P-value map | CDX4.H12RSNP.1.M.C.thr |
Motif in other formats | |
JASPAR format | CDX4.H12RSNP.1.M.C_jaspar_format.txt |
MEME format | CDX4.H12RSNP.1.M.C_meme_format.meme |
Transfac format | CDX4.H12RSNP.1.M.C_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 1400.0 | 2078.0 | 2401.0 | 977.0 |
02 | 1339.0 | 584.0 | 1359.0 | 3574.0 |
03 | 33.0 | 11.0 | 14.0 | 6798.0 |
04 | 0.0 | 0.0 | 0.0 | 6856.0 |
05 | 0.0 | 0.0 | 0.0 | 6856.0 |
06 | 6856.0 | 0.0 | 0.0 | 0.0 |
07 | 0.0 | 5427.0 | 2.0 | 1427.0 |
08 | 9.0 | 4.0 | 6511.0 | 332.0 |
09 | 6543.0 | 15.0 | 291.0 | 7.0 |
10 | 26.0 | 5332.0 | 322.0 | 1176.0 |
11 | 1081.0 | 3074.0 | 2199.0 | 502.0 |
12 | 598.25 | 3202.25 | 1335.25 | 1720.25 |
13 | 901.0 | 2267.0 | 1989.0 | 1699.0 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.204 | 0.303 | 0.35 | 0.143 |
02 | 0.195 | 0.085 | 0.198 | 0.521 |
03 | 0.005 | 0.002 | 0.002 | 0.992 |
04 | 0.0 | 0.0 | 0.0 | 1.0 |
05 | 0.0 | 0.0 | 0.0 | 1.0 |
06 | 1.0 | 0.0 | 0.0 | 0.0 |
07 | 0.0 | 0.792 | 0.0 | 0.208 |
08 | 0.001 | 0.001 | 0.95 | 0.048 |
09 | 0.954 | 0.002 | 0.042 | 0.001 |
10 | 0.004 | 0.778 | 0.047 | 0.172 |
11 | 0.158 | 0.448 | 0.321 | 0.073 |
12 | 0.087 | 0.467 | 0.195 | 0.251 |
13 | 0.131 | 0.331 | 0.29 | 0.248 |
A | C | G | T | |
---|---|---|---|---|
01 | -0.202 | 0.192 | 0.337 | -0.561 |
02 | -0.247 | -1.074 | -0.232 | 0.734 |
03 | -3.887 | -4.867 | -4.662 | 1.377 |
04 | -6.656 | -6.656 | -6.656 | 1.385 |
05 | -6.656 | -6.656 | -6.656 | 1.385 |
06 | 1.385 | -6.656 | -6.656 | -6.656 |
07 | -6.656 | 1.152 | -6.011 | -0.183 |
08 | -5.031 | -5.622 | 1.334 | -1.636 |
09 | 1.339 | -4.602 | -1.767 | -5.228 |
10 | -4.108 | 1.134 | -1.666 | -0.376 |
11 | -0.46 | 0.584 | 0.249 | -1.225 |
12 | -1.05 | 0.624 | -0.249 | 0.004 |
13 | -0.642 | 0.279 | 0.149 | -0.009 |
P-value | Threshold |
---|---|
0.001 | 1.27996 |
0.0005 | 2.85226 |
0.0001 | 6.47536 |