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 | HEY2 | 345 | 353 | - | 14.52 | GCCACGTGC |
| EUTREP16 | M1BP | 476 | 486 | + | 14.45 | CAGTCACACTG |
| EUTREP16 | Hsf | 53 | 60 | + | 14.43 | TTCCAGAA |
| EUTREP16 | ZmbZIP57 | 305 | 314 | + | 14.40 | ATGATGTAAT |
| EUTREP16 | Sox5 | 283 | 290 | - | 14.38 | AACAATGG |
| EUTREP16 | Hr38 | 193 | 200 | + | 14.35 | AAAGGTCA |
| EUTREP16 | HSFA6B | 53 | 60 | - | 14.34 | TTCTGGAA |
| EUTREP16 | hsf-1 | 53 | 60 | + | 14.34 | TTCCAGAA |
| EUTREP16 | Mnt | 346 | 352 | - | 14.31 | CCACGTG |
| EUTREP16 | HSFC1 | 53 | 60 | + | 14.24 | TTCCAGAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
