MLT1K
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001022 |
|---|---|
| TE superfamily | MaLR |
| TE class | LTR |
| Species | Theria_mammals |
| Length | 595 |
| Kimura value | 32.86 |
| Tau index | 0.7908 |
| Description | MLT1K Long Terminal Repeat for ERVL-MaLR retrotransposon |
| Comment | MLT1K has 5 bp TSDs. Reconstruction expanded upon, and replaces MER98. Note that a full-length ERV-MaLR (Mammalian apparent LTR retrotransposon) element is derived from an ERV (Endogenous Retrovirus), but only contains the Gag gene (that is, no Pol or Env). |
| Sequence |
TGTAGTGGACATCTGTTGTTTTTGCCTGCCCAGCATCCATTCCCCCTTCTTCTGGTAACAGCACCCCGATTTTCCTTTGGGGAACCACCCCTCCCCCACTCTCAGTCCATGTGGTTCGGGTGGGGCTGACCCCACCCCTCGGCTCCAGGGGTGGGCACGTGACCCAGGCCTGGCCAATCAGAGCATTCCATCCCCCTGGCCACAGTGATTGGTTCAGGGATGGGCACGTGACCCAAGCCGGGCCAATGAGAGTCAGCCCTGGGACTTTTGCTGGAACTATTGGGAAAGAGANGCTCTCTTTCCGCTGGGGTTGCTAAGCTGGNAGGATGTAAGCCTGGAGCTGCTGGCGGCCATCTTGCCACCACGTGGGGAGAGCCTGCCTGAGAATGAAGCCAACACAGAGGAAAGCAGAGCCGAGAGATGGAGAGAGACAGANTCCTGATGACATCGTTTGAGCNCCTGGATCCAGCCGTGCCTGAAGCCAGANCTACCCCTGGACTTTTCAGTTACGTGAGCCAATAAATTCCCTTTTTTGCTTAAGCCAGTTTGAGTTGGGTTTCTGTCACTTGCAACCGAAAGAGTCCTGACTAATACA
|
TF motifs of the concenus sequence
Use FIMO to detect transcription factor motifs in the concenus sequence of the TE family.
| TE_family | TFBS | Start | End | Strand | Score | Matched sequence |
|---|---|---|---|---|---|---|
| MLT1K | BHLHE41 | 154 | 163 | - | 16.31 | GTCACGTGCC |
| MLT1K | BHLHE41 | 223 | 232 | - | 16.31 | GTCACGTGCC |
| MLT1K | MAZ | 88 | 95 | + | 16.08 | CCCCTCCC |
| MLT1K | SP1 | 88 | 96 | - | 16.06 | GGGGAGGGG |
| MLT1K | bHLH77 | 151 | 162 | + | 16.06 | GTGGGCACGTGA |
| MLT1K | TFEC | 156 | 163 | + | 15.88 | CACGTGAC |
| MLT1K | TFEC | 225 | 232 | + | 15.88 | CACGTGAC |
| MLT1K | SP4 | 88 | 96 | - | 15.85 | GGGGAGGGG |
| MLT1K | NFYB | 241 | 249 | - | 15.74 | TCATTGGCC |
| MLT1K | BHLH72 | 362 | 370 | - | 15.53 | CCCACGTGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
