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 | F10B5.3 | 51 | 61 | + | 17.46 | TTTTCCAGAAA |
| EUTREP16 | ZNF281 | 271 | 280 | + | 16.91 | GGGGGATGGG |
| EUTREP16 | crc | 304 | 314 | + | 16.48 | GATGATGTAAT |
| EUTREP16 | MAX::MYC | 344 | 353 | + | 16.31 | AGCACGTGGC |
| EUTREP16 | JUND | 304 | 314 | + | 15.87 | GATGATGTAAT |
| EUTREP16 | JUN | 305 | 314 | + | 15.78 | ATGATGTAAT |
| EUTREP16 | PK09702.1 | 345 | 352 | + | 15.43 | GCACGTGG |
| EUTREP16 | BHLH72 | 345 | 353 | - | 15.26 | GCCACGTGC |
| EUTREP16 | ATF4 | 305 | 314 | + | 15.09 | ATGATGTAAT |
| EUTREP16 | nhr-6 | 193 | 200 | + | 15.08 | AAAGGTCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
