EUTREP16
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001153 |
|---|---|
| TE superfamily | Long_Terminal_Repeat_Element |
| TE order | LTR |
| Species | Eutheria |
| Length | 517 |
| Kimura value | 32.22 |
| Tau index | 0.0000 |
| Description | Conserved repetitive element present in placental mammals. |
| Comment | TG..CA termini and presence of AATAAA at appropriate place (pos 426-431) suggests LTR. |
| Sequence |
TGTTGGGATTTTAGGAATGGATTTTTATATAGTTTGGTATAGTTCAGTAATTTTCCAGAAAGACAGATTACCTGGGCCAGATGGGTGGTTTCTCCAGCCATGCTGTCTGTCCTTTTGTATGTNAATGCATCTTTTACCCATCAAGGGGGCTGTGGGNTGGGCCAGGAGCANAGAGNCGCAGACTTGACCTTAAAAGGTCAAGAATCTAGGACCCAGAGAGGTAGATGAAATCTGACCAATGAAACACCTTAGCAACATCCAGGGACCTATGGGGGATGGGCACCATTGTTTCCTAGATGTACTGATGATGTAATTTGTAATATAAAAGAATGTGACCTCCATGAGCACGTGGCTGTTCTCCTGGGANTGTGAGTTGGGCAAACGGTCCTGTGCAGGNGTGCACGCCCGTATAGCAAAGGTGGCCGAATAAACTTGTGCTTGCTTCAATCTGTGTCTCTTCGGACCGGTCTGTTCTCAGTCACACTGGGGAAACTGAGGCAGCTTAGCAGACTCATCA
|
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 |
|---|---|---|---|---|---|---|
| EUTREP16 | PK05451.1 | 345 | 352 | - | 15.05 | CCACGTGC |
| EUTREP16 | MYC | 345 | 352 | - | 14.93 | CCACGTGC |
| EUTREP16 | ARF34 | 102 | 109 | - | 14.88 | CAGACAGC |
| EUTREP16 | PIF4 | 346 | 353 | + | 14.80 | CACGTGGC |
| EUTREP16 | NR4A1 | 193 | 200 | + | 14.66 | AAAGGTCA |
| EUTREP16 | PK24205.1 | 346 | 353 | + | 14.62 | CACGTGGC |
| EUTREP16 | ZNF768 | 214 | 222 | - | 14.62 | ACCTCTCTG |
| EUTREP16 | Sox6 | 283 | 292 | + | 14.59 | CCATTGTTTC |
| EUTREP16 | ZNF341 | 351 | 358 | - | 14.55 | GAACAGCC |
| EUTREP16 | PK18401.1 | 345 | 352 | + | 14.53 | GCACGTGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
