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 | MZF1 | 65 | 72 | - | 14.60 | AATCCCCA |
| Eutr5 | mxl-3 | 697 | 704 | + | 14.59 | CCACGTGG |
| Eutr5 | mxl-3 | 697 | 704 | - | 14.59 | CCACGTGG |
| Eutr5 | ZNF417 | 93 | 99 | - | 14.55 | GGCGCCA |
| Eutr5 | ZNF417 | 94 | 100 | + | 14.55 | GGCGCCA |
| Eutr5 | NFIX | 88 | 101 | - | 14.53 | ATGGCGCCATGCCC |
| Eutr5 | TFAP2E | 515 | 523 | - | 14.51 | GCCTCAGGC |
| Eutr5 | AT1G74840 | 26 | 34 | - | 14.47 | AATGGATAA |
| Eutr5 | TFAP2E | 515 | 523 | + | 14.47 | GCCTGAGGC |
| Eutr5 | GCR1 | 350 | 357 | + | 14.47 | TGGAAGCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
