Motif | GBX2.H12CORE.0.SM.B |
Gene (human) | GBX2 (GeneCards) |
Gene synonyms (human) | |
Gene (mouse) | Gbx2 |
Gene synonyms (mouse) | Mmoxa, Stra7 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | B |
Motif | GBX2.H12CORE.0.SM.B |
Gene (human) | GBX2 (GeneCards) |
Gene synonyms (human) | |
Gene (mouse) | Gbx2 |
Gene synonyms (mouse) | Mmoxa, Stra7 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | B |
Motif length | 12 |
Consensus | nvvbTAATTRvn |
GC content | 37.45% |
Information content (bits; total / per base) | 11.9 / 0.992 |
Data sources | HT-SELEX + Methyl-HT-SELEX |
Aligned words | 8831 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 10 experiments | median | 0.906 | 0.873 | 0.782 | 0.767 | 0.657 | 0.67 |
best | 0.992 | 0.986 | 0.983 | 0.973 | 0.97 | 0.956 | |
Methyl HT-SELEX, 2 experiments | median | 0.962 | 0.942 | 0.914 | 0.894 | 0.833 | 0.827 |
best | 0.988 | 0.98 | 0.979 | 0.967 | 0.96 | 0.943 | |
Non-Methyl HT-SELEX, 8 experiments | median | 0.802 | 0.77 | 0.671 | 0.665 | 0.587 | 0.599 |
best | 0.992 | 0.986 | 0.983 | 0.973 | 0.97 | 0.956 |
rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
---|---|---|---|---|
batch 1 | 0.956 | 0.545 | 0.924 | 0.525 |
batch 2 | 0.865 | 0.814 | 0.863 | 0.609 |
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 | GBX {3.1.1.11} (TFClass) |
TFClass ID | TFClass: 3.1.1.11.2 |
HGNC | HGNC:4186 |
MGI | MGI:95668 |
EntrezGene (human) | GeneID:2637 (SSTAR profile) |
EntrezGene (mouse) | GeneID:14472 (SSTAR profile) |
UniProt ID (human) | GBX2_HUMAN |
UniProt ID (mouse) | GBX2_MOUSE |
UniProt AC (human) | P52951 (TFClass) |
UniProt AC (mouse) | P48031 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 0 human, 0 mouse |
HT-SELEX | 8 |
Methyl-HT-SELEX | 2 |
PCM | GBX2.H12CORE.0.SM.B.pcm |
PWM | GBX2.H12CORE.0.SM.B.pwm |
PFM | GBX2.H12CORE.0.SM.B.pfm |
Alignment | GBX2.H12CORE.0.SM.B.words.tsv |
Threshold to P-value map | GBX2.H12CORE.0.SM.B.thr |
Motif in other formats | |
JASPAR format | GBX2.H12CORE.0.SM.B_jaspar_format.txt |
MEME format | GBX2.H12CORE.0.SM.B_meme_format.meme |
Transfac format | GBX2.H12CORE.0.SM.B_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 2236.25 | 2058.25 | 2433.25 | 2103.25 |
02 | 1620.0 | 3692.0 | 2149.0 | 1370.0 |
03 | 1985.0 | 2376.0 | 4120.0 | 350.0 |
04 | 341.0 | 4695.0 | 1397.0 | 2398.0 |
05 | 0.0 | 0.0 | 0.0 | 8831.0 |
06 | 8831.0 | 0.0 | 0.0 | 0.0 |
07 | 8831.0 | 0.0 | 0.0 | 0.0 |
08 | 0.0 | 0.0 | 0.0 | 8831.0 |
09 | 1.0 | 56.0 | 89.0 | 8685.0 |
10 | 3908.0 | 0.0 | 4864.0 | 59.0 |
11 | 1069.75 | 3470.75 | 3307.75 | 982.75 |
12 | 1389.0 | 2504.0 | 2475.0 | 2463.0 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.253 | 0.233 | 0.276 | 0.238 |
02 | 0.183 | 0.418 | 0.243 | 0.155 |
03 | 0.225 | 0.269 | 0.467 | 0.04 |
04 | 0.039 | 0.532 | 0.158 | 0.272 |
05 | 0.0 | 0.0 | 0.0 | 1.0 |
06 | 1.0 | 0.0 | 0.0 | 0.0 |
07 | 1.0 | 0.0 | 0.0 | 0.0 |
08 | 0.0 | 0.0 | 0.0 | 1.0 |
09 | 0.0 | 0.006 | 0.01 | 0.983 |
10 | 0.443 | 0.0 | 0.551 | 0.007 |
11 | 0.121 | 0.393 | 0.375 | 0.111 |
12 | 0.157 | 0.284 | 0.28 | 0.279 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.013 | -0.07 | 0.097 | -0.048 |
02 | -0.309 | 0.514 | -0.027 | -0.477 |
03 | -0.106 | 0.073 | 0.623 | -1.836 |
04 | -1.862 | 0.754 | -0.457 | 0.083 |
05 | -6.88 | -6.88 | -6.88 | 1.386 |
06 | 1.386 | -6.88 | -6.88 | -6.88 |
07 | 1.386 | -6.88 | -6.88 | -6.88 |
08 | -6.88 | -6.88 | -6.88 | 1.386 |
09 | -6.516 | -3.636 | -3.187 | 1.369 |
10 | 0.571 | -6.88 | 0.789 | -3.585 |
11 | -0.723 | 0.452 | 0.404 | -0.808 |
12 | -0.463 | 0.126 | 0.114 | 0.109 |
P-value | Threshold |
---|---|
0.001 | 2.401275 |
0.0005 | 4.41542 |
0.0001 | 8.00025 |