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 | DPBF3 | 682 | 692 | - | 17.32 | TGACACGTGGC |
| FordPrefect | CrebA | 681 | 692 | - | 17.26 | TGACACGTGGCG |
| FordPrefect | BAD1 | 306 | 317 | + | 17.20 | CCGGGCCCCGGT |
| FordPrefect | ZNF281 | 658 | 667 | - | 17.16 | GGGGGTGGGG |
| FordPrefect | Spps | 891 | 901 | + | 17.08 | GCTCCGCCCAC |
| FordPrefect | Zm00001d049364 | 590 | 600 | - | 17.04 | CCCCCGCCGCC |
| FordPrefect | DREB2D | 590 | 603 | - | 16.92 | CCACCCCCGCCGCC |
| FordPrefect | IG1 | 601 | 609 | - | 16.76 | CTGCCGCCA |
| FordPrefect | BAD1 | 292 | 303 | + | 16.72 | CCGGGGCCCCGT |
| FordPrefect | DREB2G | 633 | 646 | - | 16.71 | GGTGCCAGCGGTGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
