FordPrefect
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000145 |
|---|---|
| TE superfamily | Tip100 |
| TE class | 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 | Rarg | 1006 | 1022 | + | -4.84 | GAGTTCAAGAGAAGACA |
| FordPrefect | BCL6B | 369 | 385 | + | -6.89 | TTCTTTCGCGGGATCGC |
| FordPrefect | Sox21b | 958 | 972 | - | -8.64 | ATCTCTTTCAATGTT |
| FordPrefect | Sox21b | 1342 | 1356 | + | -9.20 | AGTAATAACAGCGTT |
| FordPrefect | GLIS1 | 98 | 112 | + | -11.16 | AGTCCCCCTCCGGTG |
| FordPrefect | ZSCAN16 | 947 | 964 | - | -15.66 | CAATGTTGACCGCACCCC |
| FordPrefect | DAL81 | 119 | 137 | + | -52.00 | ACCGGCCGGGGCCGGCAGT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
