Motif | HXC9.H12CORE.1.S.C |
Gene (human) | HOXC9 (GeneCards) |
Gene synonyms (human) | HOX3B |
Gene (mouse) | Hoxc9 |
Gene synonyms (mouse) | Hox-3.2, Hoxc-9 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | C |
Motif | HXC9.H12CORE.1.S.C |
Gene (human) | HOXC9 (GeneCards) |
Gene synonyms (human) | HOX3B |
Gene (mouse) | Hoxc9 |
Gene synonyms (mouse) | Hox-3.2, Hoxc-9 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | C |
Motif length | 12 |
Consensus | ndTTTATGRYbn |
GC content | 34.96% |
Information content (bits; total / per base) | 10.816 / 0.901 |
Data sources | HT-SELEX |
Aligned words | 9246 |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|
Human | 1 (7) | 0.772 | 0.808 | 0.627 | 0.669 | 0.802 | 0.818 | 2.327 | 2.436 | 54.337 | 75.921 |
Mouse | 3 (19) | 0.781 | 0.809 | 0.632 | 0.657 | 0.765 | 0.812 | 2.154 | 2.381 | 82.222 | 89.337 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 2 experiments | median | 0.985 | 0.975 | 0.976 | 0.962 | 0.948 | 0.93 |
best | 0.989 | 0.981 | 0.982 | 0.971 | 0.951 | 0.936 | |
Methyl HT-SELEX, 1 experiments | median | 0.989 | 0.981 | 0.982 | 0.971 | 0.951 | 0.936 |
best | 0.989 | 0.981 | 0.982 | 0.971 | 0.951 | 0.936 | |
Non-Methyl HT-SELEX, 1 experiments | median | 0.981 | 0.968 | 0.971 | 0.953 | 0.945 | 0.923 |
best | 0.981 | 0.968 | 0.971 | 0.953 | 0.945 | 0.923 |
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: 3.1.1.8.3 |
HGNC | HGNC:5130 |
MGI | MGI:96199 |
EntrezGene (human) | GeneID:3225 (SSTAR profile) |
EntrezGene (mouse) | GeneID:15427 (SSTAR profile) |
UniProt ID (human) | HXC9_HUMAN |
UniProt ID (mouse) | HXC9_MOUSE |
UniProt AC (human) | P31274 (TFClass) |
UniProt AC (mouse) | P09633 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 1 human, 3 mouse |
HT-SELEX | 1 |
Methyl-HT-SELEX | 1 |
PCM | HXC9.H12CORE.1.S.C.pcm |
PWM | HXC9.H12CORE.1.S.C.pwm |
PFM | HXC9.H12CORE.1.S.C.pfm |
Alignment | HXC9.H12CORE.1.S.C.words.tsv |
Threshold to P-value map | HXC9.H12CORE.1.S.C.thr |
Motif in other formats | |
JASPAR format | HXC9.H12CORE.1.S.C_jaspar_format.txt |
MEME format | HXC9.H12CORE.1.S.C_meme_format.meme |
Transfac format | HXC9.H12CORE.1.S.C_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 2768.75 | 2051.75 | 2390.75 | 2034.75 |
02 | 1891.5 | 1149.5 | 1418.5 | 4786.5 |
03 | 399.0 | 31.0 | 224.0 | 8592.0 |
04 | 20.0 | 3.0 | 2.0 | 9221.0 |
05 | 3171.0 | 0.0 | 2.0 | 6073.0 |
06 | 9246.0 | 0.0 | 0.0 | 0.0 |
07 | 3.0 | 3420.0 | 3.0 | 5820.0 |
08 | 19.0 | 36.0 | 7910.0 | 1281.0 |
09 | 6064.0 | 43.0 | 2858.0 | 281.0 |
10 | 175.0 | 5577.0 | 1713.0 | 1781.0 |
11 | 1295.5 | 3787.5 | 1870.5 | 2292.5 |
12 | 1990.5 | 2206.5 | 2092.5 | 2956.5 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.299 | 0.222 | 0.259 | 0.22 |
02 | 0.205 | 0.124 | 0.153 | 0.518 |
03 | 0.043 | 0.003 | 0.024 | 0.929 |
04 | 0.002 | 0.0 | 0.0 | 0.997 |
05 | 0.343 | 0.0 | 0.0 | 0.657 |
06 | 1.0 | 0.0 | 0.0 | 0.0 |
07 | 0.0 | 0.37 | 0.0 | 0.629 |
08 | 0.002 | 0.004 | 0.856 | 0.139 |
09 | 0.656 | 0.005 | 0.309 | 0.03 |
10 | 0.019 | 0.603 | 0.185 | 0.193 |
11 | 0.14 | 0.41 | 0.202 | 0.248 |
12 | 0.215 | 0.239 | 0.226 | 0.32 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.18 | -0.119 | 0.034 | -0.127 |
02 | -0.2 | -0.698 | -0.488 | 0.727 |
03 | -1.752 | -4.242 | -2.325 | 1.312 |
04 | -4.643 | -6.082 | -6.292 | 1.383 |
05 | 0.316 | -6.921 | -6.292 | 0.965 |
06 | 1.386 | -6.921 | -6.921 | -6.921 |
07 | -6.082 | 0.391 | -6.082 | 0.923 |
08 | -4.689 | -4.102 | 1.23 | -0.589 |
09 | 0.964 | -3.934 | 0.212 | -2.1 |
10 | -2.569 | 0.88 | -0.299 | -0.26 |
11 | -0.578 | 0.493 | -0.211 | -0.008 |
12 | -0.149 | -0.046 | -0.099 | 0.246 |
P-value | Threshold |
---|---|
0.001 | 4.426265 |
0.0005 | 5.70517 |
0.0001 | 7.712655 |