| Motif | LMX1A.H12INVITRO.0.SM.B |
| Gene (human) | LMX1A (GeneCards) |
| Gene synonyms (human) | |
| Gene (mouse) | Lmx1a |
| Gene synonyms (mouse) | |
| LOGO |  |
| LOGO (reverse complement) |  |
| Motif subtype | 0 |
| Quality | B |
| Motif | LMX1A.H12INVITRO.0.SM.B |
| Gene (human) | LMX1A (GeneCards) |
| Gene synonyms (human) | |
| Gene (mouse) | Lmx1a |
| Gene synonyms (mouse) | |
| LOGO | |
| LOGO (reverse complement) | |
| Motif subtype | 0 |
| Quality | B |
| Motif length | 10 |
| Consensus | nvYTAATTRn |
| GC content | 25.5% |
| Information content (bits; total / per base) | 10.843 / 1.084 |
| Data sources | HT-SELEX + Methyl-HT-SELEX |
| Aligned words | 8999 |
| HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
|---|---|---|---|---|---|---|---|
| Overall, 4 experiments | median | 0.961 | 0.936 | 0.91 | 0.883 | 0.773 | 0.774 |
| best | 0.973 | 0.951 | 0.968 | 0.945 | 0.924 | 0.901 | |
| Methyl HT-SELEX, 1 experiments | median | 0.954 | 0.922 | 0.917 | 0.882 | 0.828 | 0.803 |
| best | 0.954 | 0.922 | 0.917 | 0.882 | 0.828 | 0.803 | |
| Non-Methyl HT-SELEX, 3 experiments | median | 0.968 | 0.95 | 0.903 | 0.884 | 0.717 | 0.745 |
| best | 0.973 | 0.951 | 0.968 | 0.945 | 0.924 | 0.901 | |
| rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
|---|---|---|---|---|
| batch 2 | 0.924 | 0.824 | 0.809 | 0.59 |
| 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 | LMX {3.1.5.6} (TFClass) |
| TFClass ID | TFClass: 3.1.5.6.1 |
| HGNC | HGNC:6653 |
| MGI | MGI:1888519 |
| EntrezGene (human) | GeneID:4009 (SSTAR profile) |
| EntrezGene (mouse) | GeneID:110648 (SSTAR profile) |
| UniProt ID (human) | LMX1A_HUMAN |
| UniProt ID (mouse) | LMX1A_MOUSE |
| UniProt AC (human) | Q8TE12 (TFClass) |
| UniProt AC (mouse) | Q9JKU8 (TFClass) |
| GRECO-DB-TF | yes |
| ChIP-Seq | 0 human, 0 mouse |
| HT-SELEX | 3 |
| Methyl-HT-SELEX | 1 |
| PCM | LMX1A.H12INVITRO.0.SM.B.pcm |
| PWM | LMX1A.H12INVITRO.0.SM.B.pwm |
| PFM | LMX1A.H12INVITRO.0.SM.B.pfm |
| Alignment | LMX1A.H12INVITRO.0.SM.B.words.tsv |
| Threshold to P-value map | LMX1A.H12INVITRO.0.SM.B.thr |
| Motif in other formats | |
| JASPAR format | LMX1A.H12INVITRO.0.SM.B_jaspar_format.txt |
| MEME format | LMX1A.H12INVITRO.0.SM.B_meme_format.meme |
| Transfac format | LMX1A.H12INVITRO.0.SM.B_transfac_format.txt |
| Homer format | |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 2293.25 | 2918.25 | 2154.25 | 1633.25 |
| 02 | 2951.75 | 1982.75 | 3004.75 | 1059.75 |
| 03 | 215.0 | 2180.0 | 1143.0 | 5461.0 |
| 04 | 0.0 | 0.0 | 0.0 | 8999.0 |
| 05 | 8999.0 | 0.0 | 0.0 | 0.0 |
| 06 | 8999.0 | 0.0 | 0.0 | 0.0 |
| 07 | 0.0 | 0.0 | 0.0 | 8999.0 |
| 08 | 342.0 | 321.0 | 430.0 | 7906.0 |
| 09 | 5806.25 | 132.25 | 2703.25 | 357.25 |
| 10 | 1424.5 | 3118.5 | 2861.5 | 1594.5 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.255 | 0.324 | 0.239 | 0.181 |
| 02 | 0.328 | 0.22 | 0.334 | 0.118 |
| 03 | 0.024 | 0.242 | 0.127 | 0.607 |
| 04 | 0.0 | 0.0 | 0.0 | 1.0 |
| 05 | 1.0 | 0.0 | 0.0 | 0.0 |
| 06 | 1.0 | 0.0 | 0.0 | 0.0 |
| 07 | 0.0 | 0.0 | 0.0 | 1.0 |
| 08 | 0.038 | 0.036 | 0.048 | 0.879 |
| 09 | 0.645 | 0.015 | 0.3 | 0.04 |
| 10 | 0.158 | 0.347 | 0.318 | 0.177 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.019 | 0.26 | -0.043 | -0.32 |
| 02 | 0.271 | -0.126 | 0.289 | -0.752 |
| 03 | -2.338 | -0.031 | -0.676 | 0.886 |
| 04 | -6.897 | -6.897 | -6.897 | 1.386 |
| 05 | 1.386 | -6.897 | -6.897 | -6.897 |
| 06 | 1.386 | -6.897 | -6.897 | -6.897 |
| 07 | -6.897 | -6.897 | -6.897 | 1.386 |
| 08 | -1.878 | -1.941 | -1.651 | 1.256 |
| 09 | 0.947 | -2.818 | 0.183 | -1.835 |
| 10 | -0.456 | 0.326 | 0.24 | -0.344 |
| P-value | Threshold |
|---|---|
| 0.001 | 4.54679 |
| 0.0005 | 5.580245 |
| 0.0001 | 7.846195 |