Motif | HXD13.H12CORE.1.SM.B |
Gene (human) | HOXD13 (GeneCards) |
Gene synonyms (human) | HOX4I |
Gene (mouse) | Hoxd13 |
Gene synonyms (mouse) | Hox-4.8 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | B |
Motif | HXD13.H12CORE.1.SM.B |
Gene (human) | HOXD13 (GeneCards) |
Gene synonyms (human) | HOX4I |
Gene (mouse) | Hoxd13 |
Gene synonyms (mouse) | Hox-4.8 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | B |
Motif length | 11 |
Consensus | ndTTTACGASn |
GC content | 38.95% |
Information content (bits; total / per base) | 12.429 / 1.13 |
Data sources | HT-SELEX + Methyl-HT-SELEX |
Aligned words | 8318 |
ChIP-Seq benchmarking | Num. of experiments (peaksets) | auROC, median | auROC, best | auPRC, median | auPRC, best | pseudo-auROC, median | pseudo-auROC, best | pseudo-log-auROC, median | pseudo-log-auROC, best | Centrality, median | Centrality, best |
---|---|---|---|---|---|---|---|---|---|---|---|
Mouse | 1 (7) | 0.851 | 0.862 | 0.708 | 0.747 | 0.81 | 0.821 | 2.341 | 2.429 | 74.018 | 82.553 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 5 experiments | median | 0.775 | 0.737 | 0.685 | 0.659 | 0.613 | 0.605 |
best | 0.994 | 0.991 | 0.967 | 0.956 | 0.908 | 0.892 | |
Methyl HT-SELEX, 1 experiments | median | 0.994 | 0.991 | 0.962 | 0.954 | 0.836 | 0.84 |
best | 0.994 | 0.991 | 0.962 | 0.954 | 0.836 | 0.84 | |
Non-Methyl HT-SELEX, 4 experiments | median | 0.748 | 0.719 | 0.659 | 0.639 | 0.596 | 0.589 |
best | 0.99 | 0.985 | 0.967 | 0.956 | 0.908 | 0.892 |
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 | HOX9-13 {3.1.1.8} (TFClass) |
TFClass ID | TFClass: 3.1.1.8.17 |
HGNC | HGNC:5136 |
MGI | MGI:96205 |
EntrezGene (human) | GeneID:3239 (SSTAR profile) |
EntrezGene (mouse) | GeneID:15433 (SSTAR profile) |
UniProt ID (human) | HXD13_HUMAN |
UniProt ID (mouse) | HXD13_MOUSE |
UniProt AC (human) | P35453 (TFClass) |
UniProt AC (mouse) | P70217 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 0 human, 1 mouse |
HT-SELEX | 4 |
Methyl-HT-SELEX | 1 |
PCM | HXD13.H12CORE.1.SM.B.pcm |
PWM | HXD13.H12CORE.1.SM.B.pwm |
PFM | HXD13.H12CORE.1.SM.B.pfm |
Alignment | HXD13.H12CORE.1.SM.B.words.tsv |
Threshold to P-value map | HXD13.H12CORE.1.SM.B.thr |
Motif in other formats | |
JASPAR format | HXD13.H12CORE.1.SM.B_jaspar_format.txt |
MEME format | HXD13.H12CORE.1.SM.B_meme_format.meme |
Transfac format | HXD13.H12CORE.1.SM.B_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 2048.75 | 1588.75 | 2738.75 | 1941.75 |
02 | 1433.0 | 875.0 | 1923.0 | 4087.0 |
03 | 248.0 | 47.0 | 298.0 | 7725.0 |
04 | 92.0 | 24.0 | 22.0 | 8180.0 |
05 | 906.0 | 48.0 | 6.0 | 7358.0 |
06 | 8318.0 | 0.0 | 0.0 | 0.0 |
07 | 0.0 | 6632.0 | 1.0 | 1685.0 |
08 | 249.0 | 10.0 | 7841.0 | 218.0 |
09 | 7523.0 | 77.0 | 658.0 | 60.0 |
10 | 224.0 | 993.0 | 6407.0 | 694.0 |
11 | 1601.5 | 2691.5 | 2758.5 | 1266.5 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.246 | 0.191 | 0.329 | 0.233 |
02 | 0.172 | 0.105 | 0.231 | 0.491 |
03 | 0.03 | 0.006 | 0.036 | 0.929 |
04 | 0.011 | 0.003 | 0.003 | 0.983 |
05 | 0.109 | 0.006 | 0.001 | 0.885 |
06 | 1.0 | 0.0 | 0.0 | 0.0 |
07 | 0.0 | 0.797 | 0.0 | 0.203 |
08 | 0.03 | 0.001 | 0.943 | 0.026 |
09 | 0.904 | 0.009 | 0.079 | 0.007 |
10 | 0.027 | 0.119 | 0.77 | 0.083 |
11 | 0.193 | 0.324 | 0.332 | 0.152 |
A | C | G | T | |
---|---|---|---|---|
01 | -0.015 | -0.269 | 0.275 | -0.068 |
02 | -0.372 | -0.864 | -0.078 | 0.675 |
03 | -2.118 | -3.744 | -1.936 | 1.312 |
04 | -3.095 | -4.373 | -4.452 | 1.369 |
05 | -0.829 | -3.724 | -5.53 | 1.263 |
06 | 1.385 | -6.827 | -6.827 | -6.827 |
07 | -6.827 | 1.159 | -6.46 | -0.21 |
08 | -2.114 | -5.135 | 1.326 | -2.246 |
09 | 1.285 | -3.268 | -1.148 | -3.51 |
10 | -2.219 | -0.738 | 1.125 | -1.095 |
11 | -0.261 | 0.258 | 0.282 | -0.495 |
P-value | Threshold |
---|---|
0.001 | 3.679365 |
0.0005 | 4.85848 |
0.0001 | 7.264295 |