FordPrefect
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000145 |
|---|---|
| TE superfamily | Tip100 |
| TE order | DNA |
| Species | Eutheria |
| Length | 1683 |
| Kimura value | 23.98 |
| Tau index | 0.8502 |
| Description | hAT-Tip100 DNA transposon, FordPrefect subfamily (non-autonomous) |
| Comment | Has 8bp TSDs. The first 66 bp of FordPrefect are 90% ID, and the last 36 bp are 80% ID to those of Zaphod. FordPrefect does not seem to have had coding capacity and perhaps hitchhiked with Zaphod. |
| Sequence |
CAGTACCGCCCTTAGACCCGGGCAAGCGGGGCCCCTGCCCCGGGCCCCGCGCCTCAGGGGACCCCGTGCTTTGGAGTGCCTTCCTCGAAATTTTCTAAGTCCCCCTCCGGTGCCTGGGACCGGCCGGGGCCGGCAGTGCCATCCGGGCGGGGCGCCCCGAGCCCGGACCGGGACCCGCGTGGGCCCTGGTCCCCGTTTCTCCCCTTCGGGGCGCTCTCCGACCCTCTACCCCGCGCGTGGGGTCGACCAGATGCCCCGAGGAGCTCCGGGACTCGCGCCTATGGGGTCGTCCCGGGGCCCCGTGGCCGGGCCCCGGTTCCAGGAGGGCGGCCTGGCGAGCGGATCGCTCCCGCTGGCCGGCGCGGTATTTCTTTCGCGGGATCGCGCGAGATTGGGCCGCCAGAATGGTGCTGACACGCTGATTTGGGGTGACTCTCACTCACGTCGGACACAGGACGAGTTCAGGGCTCTGGGCTACCGACGGTCCACCGCCGACCCTTGGGCTTGAGCCGCATGTGTGGGCCCATGCGTCGGCTCTCGCCCGTCCGTGTTCCGACCGCGGTGCCGCCTCCGGTCTACAGCACCCGAGGGCGGCGGGGGTGGCGGCAGGCATCCTTTACCCTGTGCGCCTCCCACCGCTGGCACCCAGGGCGGTCACCCCACCCCCTCCGCAGGCTCCGCGCCACGTGTCAGGCAGTCCTCCGGGGGTGGCCGCGCCTATCTCCTCCGAGGGCTTTCGAGACCGTTGCTCCGCAACGCCAACGGGCCCTTCCGATCGATGTCCTCTCTTGCCTCCGATCGATGTGGTGACGTCGTGCTCTCCCGGGTCGGTCTTAAGCCGTGCCGGACGAGGGACGGACATTCCTTGCGCGAATGGGACCGCTCTTCTCGCTCCGCCCACGGGCCCCTCGCCTATCCTCCCCGCTGTGGCGGTGTGTGGAAGGCAGGGGTGCGGTCAACATTGAAAGAGATCACATTCTAGGAATGCAGTGATTACGGCCTAAAGAGTTCAAGAGAAGACATGGTTGGAAGATGTGTTGTTCTACGTTTATGCTATAAAATTCCGAACGGTAAATTTAACATGACCAGAAAACGAATTATCGTTCACATTTTCCTGCATACTCTGGGTAAGACTTGCATTTGTGGTCATCATCAACGAAGCACAGTAACAACCTTTGAGAGAGTCATTGGAAGCCAGTATTCACGGGCGGCACGATGGATGATGCAGCGTCATGAGTAATGATGTAACCAGCATTAAATAAATGGTATTAGGGAACTGCAGAGGCAAGAAGATCTATATTGTTTCAATACAAACAGGTTCCGAAGAGCCATGGCATTGTGAGTAATAACAGCGTTGCTACCTTTTTCTCGCGGTGGGAGATATGAAATTAGCCAGGAACGGCGCATTTGACAATAAAGAACACGAAGAGATGGTTCCTGGACCTGAACAGGAAGAGATGGTGCCTGGACACTACGAAGAATCTTCACGTGCACTGATTGGACAATAAACAAATACGTAAGTACCTCTTCTCTACCCATTATTCTAAATCTTCATCGATAAATCACTATACCTCACATGGGCCCATGAATTTTGTAATACATTTTTAATCAAATTGTTTATATAGACAGGGGCCCCGCAAAAAATATTTGCCCGGGGCCCCGCACACCCTAGGGGCGGCCCTG
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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 |
|---|---|---|---|---|---|---|
| FordPrefect | AS2 | 592 | 609 | + | 20.67 | CGGCGGGGGTGGCGGCAG |
| FordPrefect | BAD1 | 1652 | 1663 | + | 19.90 | CCGGGGCCCCGC |
| FordPrefect | BAD1 | 305 | 316 | - | 19.20 | CCGGGGCCCGGC |
| FordPrefect | HY5 | 681 | 692 | + | 18.67 | CGCCACGTGTCA |
| FordPrefect | HY5 | 681 | 692 | - | 18.67 | TGACACGTGGCG |
| FordPrefect | BAD1 | 39 | 50 | + | 18.56 | CCCGGGCCCCGC |
| FordPrefect | ERF9 | 590 | 608 | + | 17.79 | GGCGGCGGGGGTGGCGGCA |
| FordPrefect | EREB29 | 589 | 598 | - | 17.61 | CCCGCCGCCC |
| FordPrefect | DPBF3 | 681 | 691 | + | 17.60 | CGCCACGTGTC |
| FordPrefect | CrebA | 681 | 692 | + | 17.38 | CGCCACGTGTCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
