Motif | GSX1.H12CORE.0.SM.B |
Gene (human) | GSX1 (GeneCards) |
Gene synonyms (human) | GSH1 |
Gene (mouse) | Gsx1 |
Gene synonyms (mouse) | Gsh-1, Gsh1 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | B |
Motif | GSX1.H12CORE.0.SM.B |
Gene (human) | GSX1 (GeneCards) |
Gene synonyms (human) | GSH1 |
Gene (mouse) | Gsx1 |
Gene synonyms (mouse) | Gsh-1, Gsh1 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | B |
Motif length | 9 |
Consensus | nYTAATdvn |
GC content | 27.12% |
Information content (bits; total / per base) | 9.155 / 1.017 |
Data sources | HT-SELEX + Methyl-HT-SELEX |
Aligned words | 8383 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 4 experiments | median | 0.82 | 0.769 | 0.764 | 0.725 | 0.705 | 0.68 |
best | 0.944 | 0.906 | 0.926 | 0.883 | 0.875 | 0.834 | |
Methyl HT-SELEX, 1 experiments | median | 0.903 | 0.844 | 0.887 | 0.827 | 0.837 | 0.784 |
best | 0.903 | 0.844 | 0.887 | 0.827 | 0.837 | 0.784 | |
Non-Methyl HT-SELEX, 3 experiments | median | 0.737 | 0.694 | 0.64 | 0.622 | 0.573 | 0.576 |
best | 0.944 | 0.906 | 0.926 | 0.883 | 0.875 | 0.834 |
rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
---|---|---|---|---|
batch 2 | 0.691 | 0.423 | 0.679 | 0.472 |
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 | GSX {3.1.1.12} (TFClass) |
TFClass ID | TFClass: 3.1.1.12.1 |
HGNC | HGNC:20374 |
MGI | MGI:95842 |
EntrezGene (human) | GeneID:219409 (SSTAR profile) |
EntrezGene (mouse) | GeneID:14842 (SSTAR profile) |
UniProt ID (human) | GSX1_HUMAN |
UniProt ID (mouse) | GSX1_MOUSE |
UniProt AC (human) | Q9H4S2 (TFClass) |
UniProt AC (mouse) | P31315 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 0 human, 0 mouse |
HT-SELEX | 3 |
Methyl-HT-SELEX | 1 |
PCM | GSX1.H12CORE.0.SM.B.pcm |
PWM | GSX1.H12CORE.0.SM.B.pwm |
PFM | GSX1.H12CORE.0.SM.B.pfm |
Alignment | GSX1.H12CORE.0.SM.B.words.tsv |
Threshold to P-value map | GSX1.H12CORE.0.SM.B.thr |
Motif in other formats | |
JASPAR format | GSX1.H12CORE.0.SM.B_jaspar_format.txt |
MEME format | GSX1.H12CORE.0.SM.B_meme_format.meme |
Transfac format | GSX1.H12CORE.0.SM.B_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 2375.25 | 1945.25 | 2183.25 | 1879.25 |
02 | 221.0 | 3084.0 | 1108.0 | 3970.0 |
03 | 0.0 | 0.0 | 0.0 | 8383.0 |
04 | 8378.0 | 5.0 | 0.0 | 0.0 |
05 | 8383.0 | 0.0 | 0.0 | 0.0 |
06 | 0.0 | 0.0 | 0.0 | 8383.0 |
07 | 1050.0 | 434.0 | 2487.0 | 4412.0 |
08 | 3828.0 | 1148.0 | 2653.0 | 754.0 |
09 | 1236.25 | 2930.25 | 2484.25 | 1732.25 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.283 | 0.232 | 0.26 | 0.224 |
02 | 0.026 | 0.368 | 0.132 | 0.474 |
03 | 0.0 | 0.0 | 0.0 | 1.0 |
04 | 0.999 | 0.001 | 0.0 | 0.0 |
05 | 1.0 | 0.0 | 0.0 | 0.0 |
06 | 0.0 | 0.0 | 0.0 | 1.0 |
07 | 0.125 | 0.052 | 0.297 | 0.526 |
08 | 0.457 | 0.137 | 0.316 | 0.09 |
09 | 0.147 | 0.35 | 0.296 | 0.207 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.125 | -0.074 | 0.041 | -0.109 |
02 | -2.24 | 0.386 | -0.636 | 0.638 |
03 | -6.834 | -6.834 | -6.834 | 1.385 |
04 | 1.385 | -5.667 | -6.834 | -6.834 |
05 | 1.385 | -6.834 | -6.834 | -6.834 |
06 | -6.834 | -6.834 | -6.834 | 1.385 |
07 | -0.69 | -1.571 | 0.171 | 0.744 |
08 | 0.602 | -0.601 | 0.236 | -1.02 |
09 | -0.527 | 0.335 | 0.17 | -0.19 |
P-value | Threshold |
---|---|
0.001 | 5.66161 |
0.0005 | 6.333745 |
0.0001 | 7.30823 |