Eutr5
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001258 |
|---|---|
| TE superfamily | Long_Terminal_Repeat_Element |
| TE class | LTR |
| Species | Eutheria |
| Length | 1130 |
| Kimura value | 34.16 |
| Tau index | 0.9620 |
| Description | Ancient interspersed repetitive sequence from eutherian mammals. |
| Comment | >71% identical to consensus. Origin unknown. More than 200 copies in eutherian mammals. Not present in opossum. ; but it shows no similarity to known SINEs and LINEs. Provisionally guessed LTR because of TG...CA termini but no obvious TSDs nor an obvious (AWTAAA) poly A signal in either orientation. GA-rich 5' end and C-rich satellite-like 3' tail support classification as a SINE. Present at orthologous sites in elephants and humans, absent in opossum. |
| Sequence |
TGTGGCGGGATGAACTGAGATCCTCTTATCCATTCCCCTCCCTCCCGCGGTCAGGGGAGAAACCTGGGGATTAGAGAGAAGCGATTTGGGCATGGCGCCATTCATTGTCAGTTAATGTGAGGAAGCTTTGTAATGTAACCCAGGGCAGGGAAGGGGCAAATGCTCTCTTAGCATAATAAGGCCAGGGTTATTATTTCGCAAGAAATAGGGTCAAAGTTATGTTAATAGGAGGAATATGAATTTCTCATGTAGACCAGACTGGGTGGTCTTCGGAAGGAAATTAATCCTCGCGGTGGCGAGGTGTGTTTGATTTTAGATACTTTAGGAGAAAACCAGCCGCAGCCCGGAGTGGAAGCCCCACTCTGTTCCCACCCCCCTCCCCTNCCCCCAGGACCCAGAGCTCACCCGCCTCCTTTCCTGGGGAGCCAGCGGACCCTGAGACCAGAGCCCACCCCTCCTCTGCAGAGCCAGCAGAANCTGGGCAGAGGAGAAAAGCCACTGACATTCAGCGGACGCCTGAGGCTGCGGAATTTGCAAGACACAAGAAGGGACTAGGGAGACTGAGACTTGATTATTTCTGTAGGGAAGGGTGGCGGATCCCGGGAGAAAGAGGGATTGGATGGGGAAGCAGAAGGAGAAGAGGTTAAAGGGAGAGGGCNGNAGAAATGAGGGAGAAGATAGGAAGCGAGGGAGCGTCCACGTGGGACGCCCTCCGAAGGCCTAGGCAGTGAGGCCTCGTCCCTTGTGTGGTACAAGGGAGCGAGGTAGCTAGACCAGAGNCGCAATCTCCCATCTCCTTCCTCCATCCCGCTTTGGGACAATTACTTGAACCCTTCAGTAAAGAACTGCTTAAACCTCCATCGGAGTCCAGCGTGTATTCGGTTCGGGGAAGACGGGCGAGGCGGTATTCGGANCGGGGAGGGATAACCCCGCTCCNCGGCCATCTGATGGGCATCGGCAGCNCCCTCNCTGTGGACTACTGGGCGGCGAGGAGCATCNACCCGCAGACGACGACCCAGCTGGAGAAACGGTAAGGCCGATCCCCCCGACTTCCCTCCCCCCAGAGAGGCGACTAGAGACATNATCTGTGGGACAGAAAAGGGAGGAGCCCGCCACATGGGTCACATACA
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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 |
|---|---|---|---|---|---|---|
| Eutr5 | Gli1 | 260 | 269 | - | 17.78 | AGACCACCCA |
| Eutr5 | ZBTB24 | 387 | 396 | + | 17.49 | CCCAGGACCC |
| Eutr5 | ZNF454 | 386 | 402 | - | 17.33 | AGCTCTGGGTCCTGGGG |
| Eutr5 | Gli2 | 260 | 268 | - | 17.12 | GACCACCCA |
| Eutr5 | ci | 259 | 269 | - | 17.08 | AGACCACCCAG |
| Eutr5 | ZFP14 | 31 | 45 | - | 16.83 | GGAGGGAGGGGAATG |
| Eutr5 | PRDM9 | 363 | 382 | - | 16.63 | GGGGAGGGGGGTGGGAACAG |
| Eutr5 | TFAP2C | 515 | 523 | + | 16.57 | GCCTGAGGC |
| Eutr5 | PATZ1 | 373 | 383 | - | 16.43 | AGGGGAGGGGG |
| Eutr5 | TFAP2A | 515 | 523 | - | 16.42 | GCCTCAGGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
