EUTREP16
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001153 |
|---|---|
| TE superfamily | Long_Terminal_Repeat_Element |
| TE class | 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 | NR4A2 | 193 | 200 | + | 14.20 | AAAGGTCA |
| EUTREP16 | PK03576.1 | 345 | 351 | - | 14.20 | CACGTGC |
| EUTREP16 | BHLH49 | 345 | 351 | - | 14.16 | CACGTGC |
| EUTREP16 | CEBPG | 305 | 314 | + | 14.07 | ATGATGTAAT |
| EUTREP16 | PK06517.1 | 345 | 351 | - | 14.07 | CACGTGC |
| EUTREP16 | PK18474.1 | 345 | 351 | - | 14.05 | CACGTGC |
| EUTREP16 | MYB93 | 32 | 39 | - | 14.00 | TACCAAAC |
| EUTREP16 | Sox7 | 283 | 292 | - | 13.98 | GAAACAATGG |
| EUTREP16 | sex-1 | 332 | 339 | - | 13.79 | GAGGTCAC |
| EUTREP16 | ref-1 | 345 | 352 | - | 13.77 | CCACGTGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
