Motif | PKNX1.H12CORE.0.P.B |
Gene (human) | PKNOX1 (GeneCards) |
Gene synonyms (human) | PREP1 |
Gene (mouse) | Pknox1 |
Gene synonyms (mouse) | Prep1 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | B |
Motif | PKNX1.H12CORE.0.P.B |
Gene (human) | PKNOX1 (GeneCards) |
Gene synonyms (human) | PREP1 |
Gene (mouse) | Pknox1 |
Gene synonyms (mouse) | Prep1 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | B |
Motif length | 12 |
Consensus | bbYSATTGGYhv |
GC content | 49.75% |
Information content (bits; total / per base) | 11.375 / 0.948 |
Data sources | ChIP-Seq |
Aligned words | 995 |
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 | 5 (35) | 0.927 | 0.939 | 0.831 | 0.858 | 0.895 | 0.914 | 3.437 | 3.614 | 194.602 | 232.602 |
Mouse | 5 (35) | 0.913 | 0.935 | 0.82 | 0.853 | 0.898 | 0.92 | 3.572 | 3.76 | 204.796 | 244.06 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 6 experiments | median | 0.551 | 0.533 | 0.532 | 0.522 | 0.52 | 0.516 |
best | 0.681 | 0.625 | 0.638 | 0.596 | 0.601 | 0.573 | |
Methyl HT-SELEX, 2 experiments | median | 0.531 | 0.522 | 0.519 | 0.515 | 0.513 | 0.51 |
best | 0.579 | 0.551 | 0.556 | 0.537 | 0.539 | 0.527 | |
Non-Methyl HT-SELEX, 4 experiments | median | 0.579 | 0.549 | 0.556 | 0.537 | 0.539 | 0.528 |
best | 0.681 | 0.625 | 0.638 | 0.596 | 0.601 | 0.573 |
rSNP benchmarking, ADASTRA | odds-ratio | -log-Fisher's P | Pearson r | Kendall tau |
---|---|---|---|---|
# | 4.672 | 15.176 | 0.193 | 0.138 |
TF superclass | Helix-turn-helix domains {3} (TFClass) |
TF class | Homeo domain factors {3.1} (TFClass) |
TF family | TALE-type HD {3.1.4} (TFClass) |
TF subfamily | PKNOX {3.1.4.5} (TFClass) |
TFClass ID | TFClass: 3.1.4.5.1 |
HGNC | HGNC:9022 |
MGI | MGI:1201409 |
EntrezGene (human) | GeneID:5316 (SSTAR profile) |
EntrezGene (mouse) | GeneID:18771 (SSTAR profile) |
UniProt ID (human) | PKNX1_HUMAN |
UniProt ID (mouse) | PKNX1_MOUSE |
UniProt AC (human) | P55347 (TFClass) |
UniProt AC (mouse) | O70477 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 5 human, 5 mouse |
HT-SELEX | 4 |
Methyl-HT-SELEX | 2 |
PCM | PKNX1.H12CORE.0.P.B.pcm |
PWM | PKNX1.H12CORE.0.P.B.pwm |
PFM | PKNX1.H12CORE.0.P.B.pfm |
Alignment | PKNX1.H12CORE.0.P.B.words.tsv |
Threshold to P-value map | PKNX1.H12CORE.0.P.B.thr |
Motif in other formats | |
JASPAR format | PKNX1.H12CORE.0.P.B_jaspar_format.txt |
MEME format | PKNX1.H12CORE.0.P.B_meme_format.meme |
Transfac format | PKNX1.H12CORE.0.P.B_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 74.0 | 221.0 | 241.0 | 459.0 |
02 | 83.0 | 457.0 | 210.0 | 245.0 |
03 | 22.0 | 189.0 | 40.0 | 744.0 |
04 | 32.0 | 195.0 | 693.0 | 75.0 |
05 | 982.0 | 4.0 | 7.0 | 2.0 |
06 | 6.0 | 75.0 | 97.0 | 817.0 |
07 | 14.0 | 3.0 | 16.0 | 962.0 |
08 | 5.0 | 1.0 | 989.0 | 0.0 |
09 | 227.0 | 6.0 | 760.0 | 2.0 |
10 | 68.0 | 766.0 | 24.0 | 137.0 |
11 | 293.0 | 198.0 | 92.0 | 412.0 |
12 | 260.0 | 126.0 | 530.0 | 79.0 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.074 | 0.222 | 0.242 | 0.461 |
02 | 0.083 | 0.459 | 0.211 | 0.246 |
03 | 0.022 | 0.19 | 0.04 | 0.748 |
04 | 0.032 | 0.196 | 0.696 | 0.075 |
05 | 0.987 | 0.004 | 0.007 | 0.002 |
06 | 0.006 | 0.075 | 0.097 | 0.821 |
07 | 0.014 | 0.003 | 0.016 | 0.967 |
08 | 0.005 | 0.001 | 0.994 | 0.0 |
09 | 0.228 | 0.006 | 0.764 | 0.002 |
10 | 0.068 | 0.77 | 0.024 | 0.138 |
11 | 0.294 | 0.199 | 0.092 | 0.414 |
12 | 0.261 | 0.127 | 0.533 | 0.079 |
A | C | G | T | |
---|---|---|---|---|
01 | -1.196 | -0.117 | -0.031 | 0.609 |
02 | -1.084 | 0.605 | -0.168 | -0.015 |
03 | -2.357 | -0.273 | -1.792 | 1.091 |
04 | -2.005 | -0.242 | 1.02 | -1.183 |
05 | 1.368 | -3.778 | -3.357 | -4.208 |
06 | -3.479 | -1.183 | -0.931 | 1.184 |
07 | -2.768 | -3.97 | -2.648 | 1.347 |
08 | -3.617 | -4.521 | 1.375 | -4.978 |
09 | -0.091 | -3.479 | 1.112 | -4.208 |
10 | -1.279 | 1.12 | -2.276 | -0.591 |
11 | 0.163 | -0.226 | -0.983 | 0.502 |
12 | 0.044 | -0.673 | 0.753 | -1.132 |
P-value | Threshold |
---|---|
0.001 | 4.37756 |
0.0005 | 5.37801 |
0.0001 | 7.352145 |