MLT1M
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001024 |
|---|---|
| TE superfamily | MaLR |
| TE order | LTR |
| Species | Theria_mammals |
| Length | 672 |
| Kimura value | 31.49 |
| Tau index | 0.9620 |
| Description | MLT1M Long Terminal Repeat for ERVL-MaLR retrotransposon |
| Comment | MLT1M has 5 bp TSD. 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 |
TGTACTAGACATGTCAATCACGGTGCCTGCCACGCCCACAGCCCCTTCTAAGGGAAACTGCCCCGCCCACAGCCCCTGCTGAAGGGGCAGCCCTAGGCGGCCATGTTTTGTACCACGTGACCCTGCCCTCCCCTGGCCACAGCTGATTGGACCAGGGGTGGGCACCTGACCCAAGGGCAGCCAATCCATAGGCTGGCCAGCGACCTATGACGTGGCCTGGCGCGAAAAGATGAGCTGGGCCAATCAGATTCTCTCTCTCGGGAATTTGAACTGGGAAACACGGAGAGAATGAGGCAGTTAGCAGCGGGAGCTGAAGCTGAAAGGATGCATAGAGAGAAGCCATGAGGTAGAGTCGGGGCCATGATGGGCCATGTGCAAGCCGAAGTTATGAGGAAGCAGAAACTATGAGTAAGCAGAGGAAGCCGGTCGGTAGAGAGAAGAGAACGGAGCAGACGCGCAGAGAGAAGCNGAGACGCGTGATGAGAGAGGGACCGGACGAGAGCNGCNGAGGTCCCTAGAGCTGCCCCGGTTCCGGCCGCTTCCAGTCCCTGTTCCTGGCGNTTTCCCAGTTCCAGTTCCGGTCCACGTGTATCCTTACAATAAACCCCCCTTTTCTTGAGNTAACTTGAGTGAGTCTCTGTTCCTTGCAACCAAAAGAGCCTAACTAAAACA
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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 |
|---|---|---|---|---|---|---|
| MLT1M | BPC5 | 274 | 303 | + | -28.38 | GGAAACACGGAGAGAATGAGGCAGTTAGCA |
| MLT1M | BPC5 | 323 | 352 | + | -42.18 | GGATGCATAGAGAGAAGCCATGAGGTAGAG |
| MLT1M | BPC5 | 272 | 301 | + | -43.61 | TGGGAAACACGGAGAGAATGAGGCAGTTAG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
