Motif | HXC9.H12CORE.2.M.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 | 2 |
Quality | C |
Motif | HXC9.H12CORE.2.M.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 | 2 |
Quality | C |
Motif length | 13 |
Consensus | nhTTTACGAYbnn |
GC content | 39.46% |
Information content (bits; total / per base) | 12.953 / 0.996 |
Data sources | Methyl-HT-SELEX |
Aligned words | 7484 |
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) | 0.736 | 0.771 | 0.555 | 0.602 | 0.75 | 0.767 | 2.005 | 2.083 | 33.149 | 43.886 |
Mouse | 3 (19) | 0.75 | 0.781 | 0.578 | 0.611 | 0.718 | 0.767 | 1.904 | 2.11 | 55.444 | 73.62 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 2 experiments | median | 0.989 | 0.983 | 0.969 | 0.958 | 0.926 | 0.907 |
best | 0.994 | 0.991 | 0.98 | 0.973 | 0.937 | 0.923 | |
Methyl HT-SELEX, 1 experiments | median | 0.994 | 0.991 | 0.98 | 0.973 | 0.937 | 0.923 |
best | 0.994 | 0.991 | 0.98 | 0.973 | 0.937 | 0.923 | |
Non-Methyl HT-SELEX, 1 experiments | median | 0.985 | 0.975 | 0.958 | 0.942 | 0.915 | 0.891 |
best | 0.985 | 0.975 | 0.958 | 0.942 | 0.915 | 0.891 |
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.2.M.C.pcm |
PWM | HXC9.H12CORE.2.M.C.pwm |
PFM | HXC9.H12CORE.2.M.C.pfm |
Alignment | HXC9.H12CORE.2.M.C.words.tsv |
Threshold to P-value map | HXC9.H12CORE.2.M.C.thr |
Motif in other formats | |
JASPAR format | HXC9.H12CORE.2.M.C_jaspar_format.txt |
MEME format | HXC9.H12CORE.2.M.C_meme_format.meme |
Transfac format | HXC9.H12CORE.2.M.C_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 2103.75 | 1969.75 | 1810.75 | 1599.75 |
02 | 1406.75 | 1224.75 | 1154.75 | 3697.75 |
03 | 325.0 | 21.0 | 135.0 | 7003.0 |
04 | 12.0 | 4.0 | 2.0 | 7466.0 |
05 | 1885.0 | 0.0 | 1.0 | 5598.0 |
06 | 7484.0 | 0.0 | 0.0 | 0.0 |
07 | 0.0 | 5864.0 | 0.0 | 1620.0 |
08 | 0.0 | 0.0 | 7428.0 | 56.0 |
09 | 7120.0 | 2.0 | 330.0 | 32.0 |
10 | 8.0 | 5397.0 | 687.0 | 1392.0 |
11 | 996.0 | 3423.0 | 1865.0 | 1200.0 |
12 | 1442.75 | 1913.75 | 1391.75 | 2735.75 |
13 | 1762.25 | 2208.25 | 1561.25 | 1952.25 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.281 | 0.263 | 0.242 | 0.214 |
02 | 0.188 | 0.164 | 0.154 | 0.494 |
03 | 0.043 | 0.003 | 0.018 | 0.936 |
04 | 0.002 | 0.001 | 0.0 | 0.998 |
05 | 0.252 | 0.0 | 0.0 | 0.748 |
06 | 1.0 | 0.0 | 0.0 | 0.0 |
07 | 0.0 | 0.784 | 0.0 | 0.216 |
08 | 0.0 | 0.0 | 0.993 | 0.007 |
09 | 0.951 | 0.0 | 0.044 | 0.004 |
10 | 0.001 | 0.721 | 0.092 | 0.186 |
11 | 0.133 | 0.457 | 0.249 | 0.16 |
12 | 0.193 | 0.256 | 0.186 | 0.366 |
13 | 0.235 | 0.295 | 0.209 | 0.261 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.117 | 0.051 | -0.033 | -0.156 |
02 | -0.285 | -0.423 | -0.482 | 0.681 |
03 | -1.745 | -4.39 | -2.614 | 1.319 |
04 | -4.88 | -5.706 | -6.093 | 1.383 |
05 | 0.007 | -6.733 | -6.363 | 1.095 |
06 | 1.385 | -6.733 | -6.733 | -6.733 |
07 | -6.733 | 1.142 | -6.733 | -0.144 |
08 | -6.733 | -6.733 | 1.378 | -3.471 |
09 | 1.336 | -6.093 | -1.73 | -4.002 |
10 | -5.21 | 1.059 | -1.0 | -0.295 |
11 | -0.629 | 0.604 | -0.003 | -0.443 |
12 | -0.26 | 0.023 | -0.296 | 0.38 |
13 | -0.06 | 0.166 | -0.181 | 0.042 |
P-value | Threshold |
---|---|
0.001 | 2.65736 |
0.0005 | 4.20986 |
0.0001 | 7.424185 |