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 | ZNF148 | 374 | 383 | + | 16.10 | CCCCTCCCCT |
| Eutr5 | MAZ | 35 | 42 | + | 16.08 | CCCCTCCC |
| Eutr5 | MAZ | 374 | 381 | + | 16.08 | CCCCTCCC |
| Eutr5 | ZNF148 | 35 | 44 | + | 16.08 | CCCCTCCCTC |
| Eutr5 | TFAP2B | 515 | 523 | - | 16.07 | GCCTCAGGC |
| Eutr5 | SP1 | 374 | 382 | - | 16.06 | GGGGAGGGG |
| Eutr5 | ZNF331 | 461 | 470 | + | 15.87 | TGCAGAGCCA |
| Eutr5 | SP4 | 374 | 382 | - | 15.85 | GGGGAGGGG |
| Eutr5 | Zfx | 717 | 726 | - | 15.73 | GCCTAGGCCT |
| Eutr5 | TfAP-2 | 515 | 523 | + | 15.56 | GCCTGAGGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
