Motif | LHX6.H12CORE.1.S.B |
Gene (human) | LHX6 (GeneCards) |
Gene synonyms (human) | LHX6.1 |
Gene (mouse) | Lhx6 |
Gene synonyms (mouse) | Lhx6.1 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | B |
Motif | LHX6.H12CORE.1.S.B |
Gene (human) | LHX6 (GeneCards) |
Gene synonyms (human) | LHX6.1 |
Gene (mouse) | Lhx6 |
Gene synonyms (mouse) | Lhx6.1 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | B |
Motif length | 14 |
Consensus | nnvSTAATTARbbn |
GC content | 40.71% |
Information content (bits; total / per base) | 12.657 / 0.904 |
Data sources | HT-SELEX |
Aligned words | 8423 |
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 | 2 (12) | 0.841 | 0.889 | 0.7 | 0.754 | 0.75 | 0.834 | 1.99 | 2.449 | 118.876 | 158.174 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 4 experiments | median | 0.818 | 0.805 | 0.775 | 0.77 | 0.75 | 0.746 |
best | 0.991 | 0.984 | 0.986 | 0.976 | 0.978 | 0.966 | |
Methyl HT-SELEX, 1 experiments | median | 0.989 | 0.982 | 0.982 | 0.971 | 0.966 | 0.951 |
best | 0.989 | 0.982 | 0.982 | 0.971 | 0.966 | 0.951 | |
Non-Methyl HT-SELEX, 3 experiments | median | 0.646 | 0.627 | 0.568 | 0.569 | 0.534 | 0.541 |
best | 0.991 | 0.984 | 0.986 | 0.976 | 0.978 | 0.966 |
rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
---|---|---|---|---|
batch 1 | 0.95 | 0.827 | 0.922 | 0.606 |
TF superclass | Helix-turn-helix domains {3} (TFClass) |
TF class | Homeo domain factors {3.1} (TFClass) |
TF family | HD-LIM {3.1.5} (TFClass) |
TF subfamily | LHX6-like {3.1.5.5} (TFClass) |
TFClass ID | TFClass: 3.1.5.5.1 |
HGNC | HGNC:21735 |
MGI | MGI:1306803 |
EntrezGene (human) | GeneID:26468 (SSTAR profile) |
EntrezGene (mouse) | GeneID:16874 (SSTAR profile) |
UniProt ID (human) | LHX6_HUMAN |
UniProt ID (mouse) | LHX6_MOUSE |
UniProt AC (human) | Q9UPM6 (TFClass) |
UniProt AC (mouse) | Q9R1R0 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 0 human, 2 mouse |
HT-SELEX | 3 |
Methyl-HT-SELEX | 1 |
PCM | LHX6.H12CORE.1.S.B.pcm |
PWM | LHX6.H12CORE.1.S.B.pwm |
PFM | LHX6.H12CORE.1.S.B.pfm |
Alignment | LHX6.H12CORE.1.S.B.words.tsv |
Threshold to P-value map | LHX6.H12CORE.1.S.B.thr |
Motif in other formats | |
JASPAR format | LHX6.H12CORE.1.S.B_jaspar_format.txt |
MEME format | LHX6.H12CORE.1.S.B_meme_format.meme |
Transfac format | LHX6.H12CORE.1.S.B_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 2406.25 | 1813.25 | 2194.25 | 2009.25 |
02 | 2142.75 | 1719.75 | 2872.75 | 1687.75 |
03 | 1265.0 | 3129.0 | 2962.0 | 1067.0 |
04 | 14.0 | 3907.0 | 4245.0 | 257.0 |
05 | 0.0 | 1498.0 | 0.0 | 6925.0 |
06 | 8421.0 | 2.0 | 0.0 | 0.0 |
07 | 8423.0 | 0.0 | 0.0 | 0.0 |
08 | 0.0 | 0.0 | 0.0 | 8423.0 |
09 | 0.0 | 2639.0 | 0.0 | 5784.0 |
10 | 8423.0 | 0.0 | 0.0 | 0.0 |
11 | 2379.0 | 647.0 | 5256.0 | 141.0 |
12 | 64.0 | 3692.0 | 1952.0 | 2715.0 |
13 | 1225.5 | 1863.5 | 3644.5 | 1689.5 |
14 | 2323.0 | 2184.0 | 1784.0 | 2132.0 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.286 | 0.215 | 0.261 | 0.239 |
02 | 0.254 | 0.204 | 0.341 | 0.2 |
03 | 0.15 | 0.371 | 0.352 | 0.127 |
04 | 0.002 | 0.464 | 0.504 | 0.031 |
05 | 0.0 | 0.178 | 0.0 | 0.822 |
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 | 0.313 | 0.0 | 0.687 |
10 | 1.0 | 0.0 | 0.0 | 0.0 |
11 | 0.282 | 0.077 | 0.624 | 0.017 |
12 | 0.008 | 0.438 | 0.232 | 0.322 |
13 | 0.145 | 0.221 | 0.433 | 0.201 |
14 | 0.276 | 0.259 | 0.212 | 0.253 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.133 | -0.149 | 0.041 | -0.047 |
02 | 0.017 | -0.202 | 0.31 | -0.221 |
03 | -0.509 | 0.396 | 0.341 | -0.679 |
04 | -4.865 | 0.618 | 0.701 | -2.096 |
05 | -6.838 | -0.34 | -6.838 | 1.19 |
06 | 1.385 | -6.204 | -6.838 | -6.838 |
07 | 1.385 | -6.838 | -6.838 | -6.838 |
08 | -6.838 | -6.838 | -6.838 | 1.385 |
09 | -6.838 | 0.226 | -6.838 | 1.01 |
10 | 1.385 | -6.838 | -6.838 | -6.838 |
11 | 0.122 | -1.178 | 0.914 | -2.689 |
12 | -3.46 | 0.561 | -0.076 | 0.254 |
13 | -0.541 | -0.122 | 0.548 | -0.22 |
14 | 0.098 | 0.036 | -0.166 | 0.012 |
P-value | Threshold |
---|---|
0.001 | 1.29291 |
0.0005 | 3.634815 |
0.0001 | 7.752765 |