MLT1B
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001127 |
|---|---|
| TE superfamily | MaLR |
| TE class | LTR |
| Species | Boreoeutheria |
| Length | 390 |
| Kimura value | 19.62 |
| Tau index | 0.8578 |
| Description | MLT1B Long Terminal Repeat for ERVL-MaLR retrotransposon |
| Comment | MLT1B (Mammalian LTR Transposon) has 5 bp TSDs. 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 |
TGTTATGGGCTGAATTGTGTCCCCCCAAAATTCATATGTTGAAGTCCTAACCCCCAGTACCTCAGAATGTGACTGTATTTGGAGATAGGGCCTTTAAAGAGGTAATTAAGTTAAAATGAGGTCATTAGGGTGGGCCCTAATCCAATATGACTGGTGTCCTTATAAGAAGAGGAGATTAGGACACAGACACGCACAGAGGGAAGACCATGTGAGGACACAGGGAGAAGGCGGCCATCTGCAAGCCAAGGAGAGAGGCCTCAGAAGAAACCAACCCTGCCGACACCTTGATCTCGGACTTCCAGCCTCCAGAACTGTGAGAAAATAAATTTCTGTTGTTTAAGCCACCCAGTCTGTGGTACTTTGTTATGGCAGCCCTAGCAAACTAATACA
|
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 |
|---|---|---|---|---|---|---|
| MLT1B | DUXA | 102 | 114 | - | 13.98 | TTAACTTAATTAC |
| MLT1B | TCP19 | 130 | 137 | - | 13.97 | GGGCCCAC |
| MLT1B | TCP4 | 130 | 137 | - | 13.94 | GGGCCCAC |
| MLT1B | ZIPIC | 369 | 378 | + | 13.83 | GCAGCCCTAG |
| MLT1B | PROP1 | 103 | 113 | + | 13.76 | TAATTAAGTTA |
| MLT1B | NEUROD1 | 232 | 239 | - | 13.49 | GCAGATGG |
| MLT1B | TCP8 | 130 | 137 | - | 13.45 | GGGCCCAC |
| MLT1B | PK10344.1 | 130 | 137 | - | 13.44 | GGGCCCAC |
| MLT1B | RAP2-10 | 276 | 282 | + | 13.38 | GCCGACA |
| MLT1B | Atoh1 | 232 | 238 | - | 13.34 | CAGATGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
