Motif | PHX2A.H12CORE.1.SM.B |
Gene (human) | PHOX2A (GeneCards) |
Gene synonyms (human) | ARIX, PMX2A |
Gene (mouse) | Phox2a |
Gene synonyms (mouse) | Arix, Phox2, Pmx2, Pmx2a |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | B |
Motif | PHX2A.H12CORE.1.SM.B |
Gene (human) | PHOX2A (GeneCards) |
Gene synonyms (human) | ARIX, PMX2A |
Gene (mouse) | Phox2a |
Gene synonyms (mouse) | Arix, Phox2, Pmx2, Pmx2a |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | B |
Motif length | 12 |
Consensus | vnbYAATTAvbn |
GC content | 34.51% |
Information content (bits; total / per base) | 11.005 / 0.917 |
Data sources | HT-SELEX + Methyl-HT-SELEX |
Aligned words | 7535 |
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 (4) | 0.833 | 0.866 | 0.686 | 0.718 | 0.76 | 0.795 | 2.174 | 2.338 | 52.184 | 87.495 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 4 experiments | median | 0.964 | 0.942 | 0.945 | 0.916 | 0.914 | 0.878 |
best | 0.98 | 0.968 | 0.966 | 0.947 | 0.924 | 0.903 | |
Methyl HT-SELEX, 1 experiments | median | 0.96 | 0.934 | 0.944 | 0.912 | 0.914 | 0.878 |
best | 0.96 | 0.934 | 0.944 | 0.912 | 0.914 | 0.878 | |
Non-Methyl HT-SELEX, 3 experiments | median | 0.967 | 0.947 | 0.946 | 0.918 | 0.914 | 0.878 |
best | 0.98 | 0.968 | 0.966 | 0.947 | 0.924 | 0.903 |
TF superclass | Helix-turn-helix domains {3} (TFClass) |
TF class | Homeo domain factors {3.1} (TFClass) |
TF family | Paired-related HD {3.1.3} (TFClass) |
TF subfamily | PHOX {3.1.3.18} (TFClass) |
TFClass ID | TFClass: 3.1.3.18.1 |
HGNC | HGNC:691 |
MGI | MGI:106633 |
EntrezGene (human) | GeneID:401 (SSTAR profile) |
EntrezGene (mouse) | GeneID:11859 (SSTAR profile) |
UniProt ID (human) | PHX2A_HUMAN |
UniProt ID (mouse) | PHX2A_MOUSE |
UniProt AC (human) | O14813 (TFClass) |
UniProt AC (mouse) | Q62066 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 0 human, 1 mouse |
HT-SELEX | 3 |
Methyl-HT-SELEX | 1 |
PCM | PHX2A.H12CORE.1.SM.B.pcm |
PWM | PHX2A.H12CORE.1.SM.B.pwm |
PFM | PHX2A.H12CORE.1.SM.B.pfm |
Alignment | PHX2A.H12CORE.1.SM.B.words.tsv |
Threshold to P-value map | PHX2A.H12CORE.1.SM.B.thr |
Motif in other formats | |
JASPAR format | PHX2A.H12CORE.1.SM.B_jaspar_format.txt |
MEME format | PHX2A.H12CORE.1.SM.B_meme_format.meme |
Transfac format | PHX2A.H12CORE.1.SM.B_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 3028.25 | 1583.25 | 1655.25 | 1268.25 |
02 | 1587.5 | 2582.5 | 1375.5 | 1989.5 |
03 | 830.0 | 2860.0 | 2525.0 | 1320.0 |
04 | 349.0 | 2891.0 | 301.0 | 3994.0 |
05 | 6708.0 | 61.0 | 764.0 | 2.0 |
06 | 7535.0 | 0.0 | 0.0 | 0.0 |
07 | 0.0 | 0.0 | 0.0 | 7535.0 |
08 | 0.0 | 0.0 | 0.0 | 7535.0 |
09 | 7535.0 | 0.0 | 0.0 | 0.0 |
10 | 2463.0 | 1445.0 | 3431.0 | 196.0 |
11 | 469.75 | 3722.75 | 1767.75 | 1574.75 |
12 | 1286.25 | 1913.25 | 2326.25 | 2009.25 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.402 | 0.21 | 0.22 | 0.168 |
02 | 0.211 | 0.343 | 0.183 | 0.264 |
03 | 0.11 | 0.38 | 0.335 | 0.175 |
04 | 0.046 | 0.384 | 0.04 | 0.53 |
05 | 0.89 | 0.008 | 0.101 | 0.0 |
06 | 1.0 | 0.0 | 0.0 | 0.0 |
07 | 0.0 | 0.0 | 0.0 | 1.0 |
08 | 0.0 | 0.0 | 0.0 | 1.0 |
09 | 1.0 | 0.0 | 0.0 | 0.0 |
10 | 0.327 | 0.192 | 0.455 | 0.026 |
11 | 0.062 | 0.494 | 0.235 | 0.209 |
12 | 0.171 | 0.254 | 0.309 | 0.267 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.474 | -0.174 | -0.129 | -0.395 |
02 | -0.171 | 0.315 | -0.314 | 0.055 |
03 | -0.818 | 0.417 | 0.293 | -0.355 |
04 | -1.681 | 0.428 | -1.828 | 0.751 |
05 | 1.269 | -3.395 | -0.901 | -6.1 |
06 | 1.385 | -6.739 | -6.739 | -6.739 |
07 | -6.739 | -6.739 | -6.739 | 1.385 |
08 | -6.739 | -6.739 | -6.739 | 1.385 |
09 | 1.385 | -6.739 | -6.739 | -6.739 |
10 | 0.268 | -0.265 | 0.599 | -2.253 |
11 | -1.385 | 0.681 | -0.063 | -0.179 |
12 | -0.381 | 0.016 | 0.211 | 0.064 |
P-value | Threshold |
---|---|
0.001 | 4.314085 |
0.0005 | 5.76941 |
0.0001 | 7.84189 |