MLT1B
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001127 |
|---|---|
| TE superfamily | MaLR |
| TE order | 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 | ARALYDRAFT_484486 | 130 | 137 | - | 15.43 | GGGCCCAC |
| MLT1B | VIT_15s0048g01150 | 130 | 137 | - | 15.13 | GGGCCCAC |
| MLT1B | ZNF692 | 130 | 137 | - | 15.00 | GGGCCCAC |
| MLT1B | EREB127 | 275 | 282 | + | 14.97 | TGCCGACA |
| MLT1B | PHOX2A | 103 | 113 | - | 14.88 | TAACTTAATTA |
| MLT1B | Glyma19g26560.1 | 130 | 137 | - | 14.75 | GGGCCCAC |
| MLT1B | GLYMA19G26560 | 130 | 137 | - | 14.75 | GGGCCCAC |
| MLT1B | DREB1G | 275 | 282 | + | 14.74 | TGCCGACA |
| MLT1B | TCP21 | 130 | 140 | + | 14.73 | GTGGGCCCTAA |
| MLT1B | TCP16 | 130 | 137 | + | 14.51 | GTGGGCCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
