hAT-4b_Ther
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001152 |
|---|---|
| TE superfamily | Tip100 |
| TE class | DNA |
| Species | Theria_mammals |
| Length | 1263 |
| Kimura value | 33.43 |
| Tau index | 0.0000 |
| Description | hAT-Tip100 DNA transposon, hAT-4b_Ther subfamily |
| Comment | Present in placentals and marsupials, absent from monotremes. Nearly identical to hAT-4_Crp (which was active in an ancestor of all crocodiles) except for numerous small and one 2160 bp deletion (at pos 997-998). |
| Sequence |
AGGGCCNAAGCGTGGNGNAGTGGGAAGGGTACGCTTTCTAGGNCCCGAAGATNCAGGGGGNCCCAGCCCAGGCTGCAACCCTATTACCACGAGGAAAAAAACTAAGGCTAAATTNTAGGTCATGCTTGAGGATATTTATGGAAAGTTATGTNCTACCTATATGGGATCTGTGAGCCTGGAGCCAATCAGAAGCAGAACAAGCAACATTCTGAACAGTGAGTTGCTGCTTTCTGTAGAACAGAGAGAGTGTGCTTCTTGTTGTGCAGCTAAATCTAGGACTTGTAGTTTGAGAGACAGANAGAGGGATTTATGCTTCCCTATGTGACATGCTCTCTCAACTACAAGTCCCAGAGTCCCTTGTGCATGGAGAGGGGAGGGACAAAGCACCACATAACCAGGGACATTCCCAGAAAGGACAGCGGAAGCCACAGCGCCGCTTCTGCTGGAGGATTTACAGGCCCAAAANCGAGTAATGAGTTAGGCCTGGCGGTCTACACGTTGCACAGAGAGAAATNAAAATCAAAACAAAANAGGTAGATTAGTGCCTGTGGGAAGGAAAGGACATCTCTTTCTCTCTCTCTCACACGCGCACCATGTCTGGCTATAAGTACAAATCAGGCAGCCAGAAACATAAGGAGGTAAAACAAAGGGAACTAAAAGAAGCAAAAGGACACCAATCAATCCTCCAGTTTTTCAAATCAGACAAGGCCCTGGCAACTGGTGATGATGAAGAAAAGCTGCTGCCAGATGCATCATGTGATGACTCCAATGATCTAATTCTTTCATCATCAAAAGAGAGTCAGGTAATATCACCATTAGCAGAAGAAGGCTTAAAAAAACAGGAGAGAGNAGTAGTACTAGTACTACACTATCTGATTCATGCTTTTTCAAAGACCCAGGCTTGTGGCCTAAACTGATAACGGATTCTATCCATCAAAAAATTGTTCTATCTGGTGTCCTGACTTTTGAAGAAATGCGGAAGCTAGCAAAGTGAATTGGTCTATTTATAAAATGTTTGCAGCCATGTTGGTCCATTAGAACAACAAACAAATCAAAACATCGACTGGATAATACCGTTATTAGGACCAACAACCCAAAAGTTACAAAATAGTCAGCAATGTAGAATGTAATTTCAGAATTAAAATAGAAATTTTTCTTTCATGATTCATGAGATTATGTATGTGGGATGGGATGGTGTGTGTAGAAGGGGGCGCACCTTACAANTTTAGACTGGGCGGGCCCGAAGAAATNATGCTTGGGCCC
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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 |
|---|---|---|---|---|---|---|
| hAT-4b_Ther | BPC5 | 560 | 589 | - | -23.17 | CGCGTGTGAGAGAGAGAGAAAGAGATGTCC |
| hAT-4b_Ther | BPC5 | 566 | 595 | - | -24.84 | ATGGTGCGCGTGTGAGAGAGAGAGAAAGAG |
| hAT-4b_Ther | BPC5 | 558 | 587 | - | -29.05 | CGTGTGAGAGAGAGAGAAAGAGATGTCCTT |
| hAT-4b_Ther | BPC5 | 570 | 599 | - | -29.29 | AGACATGGTGCGCGTGTGAGAGAGAGAGAA |
| hAT-4b_Ther | BPC5 | 562 | 591 | - | -29.30 | TGCGCGTGTGAGAGAGAGAGAAAGAGATGT |
| hAT-4b_Ther | BPC5 | 554 | 583 | - | -34.61 | TGAGAGAGAGAGAAAGAGATGTCCTTTCCT |
| hAT-4b_Ther | BPC5 | 568 | 597 | - | -35.33 | ACATGGTGCGCGTGTGAGAGAGAGAGAAAG |
| hAT-4b_Ther | BPC5 | 572 | 601 | - | -41.65 | CCAGACATGGTGCGCGTGTGAGAGAGAGAG |
| hAT-4b_Ther | BPC5 | 574 | 603 | - | -47.99 | AGCCAGACATGGTGCGCGTGTGAGAGAGAG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
