L1P1_5end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000315 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Hominoidea |
| Length | 2259 |
| Kimura value | 3.99 |
| Tau index | 0.8038 |
| Description | 5' end of L1 retrotransposon, L1P1_5end subfamily |
| Comment | ORF1: ~1030-2046; ORF2 begins ~2110 |
| Sequence |
GGGGGNGGAGCCAAGATGGCCGAATAGGAACAGCTCCGGTCTACAGCTCCCAGCGTGAGCGACGCAGAAGACGGGTGATTTCTGCATTTCCANCTGAGGTACCGGGTTCATCTCACTGGGGAGTGCCGGACAGTGGGCGCAGGACAGTGGGTGCAGCGCACCGTGCGCGAGCCGAAGCAGGGCGAGGCATCGCCTCACCCGGGAAGCGCAAGGGGTCAGGGAGTTCCCTTTCCTAGTCAAAGAAAGGGGTGACAGACGGCACCTGGAAAATCGGGTCACTCCCACCCTAATACTGCGCTTTTCCGACGGGCTTAANAAACGGCGCACCAGGAGATTATATCCCGCACCTGGCTCGGAGGGTCCTACGCCCACGGAGCCTCGCTCATTGCTAGCACAGCAGTCTGAGATCAAACTGCAAGGCGGCAGCGAGGCTGGGGGAGGGGCGCCCGCCATTGCCCAGGCTTGANTAGGTAAACAAAGCGGCCGGGAAGCTCGAACTGGGTGGAGCCCACCACAGCTCAAGGAGGCCTGCCTGCCTCTGTAGGCTCCACCTCTGGGGGCAGGGCACAGACAAACAAAAAGACAGCAGTAACCTCTGCAGACTTAAATGTCCCTGTCTGACAGCTTTGAAGAGAGCAGTGGTTCTCCCAGCACGCAGCTGGAGATCTGAGAACGGGCAGACTGCCTCCTCAAGTGGGTCCCTGACCCCCGAGCAGCCTAACTGGGAGGCACCCCCCAGTAGGGGCAGACTGACACCTCACACGGCCGGGTACTCCTCTGAGACAAAACTTCCAGAGGAACGATCAGGCAGCAGCATTCGCGGTTCACCAANATCCGCTGTTCTGCAGCCACCGCTGCTGATACCCAGGCAAACAGGGTCTGGAGTGGACCTCCAGCAAACTCCAACAGACCTGCAGCTGAGGGTCCTGNCTGTTAGAAGGAAAACTAACAAACAGAAAGGACATCCACACCAAAAACCCATCTGTACGTCACCATCATCAAAGACCAAAGGTAGATAAAACCACAAAGATGGGGAAAAAACAGAGCAGAAAAACTGGAAACTCTAAAAANCAGAGCGCCTCTCCTCCTCCAAAGGAACGCAGCTCCTCACCAGCAACGGAACAAAGCTGGACGGAGAATGACTTTGACGAGTTGAGAGAAGAAGGCTTCAGACGATCAAACTACTCCGAGCTANAGGAGGAAGTTCGAACCAATGGCAAAGAAGTTAAAAACTTTGAAAAAAAATTAGACGAATGGATAACTAGAATAACCAATGCAGAGAAGTCCTTAAAGGACCTGATGGAGCTGAAAGCCAAGGCNCGAGAACTACGTGANGAATGCAGAAGCCTCAGNAGCCGATGCGATCAACTGGAAGAAAGGGTATCAGTGATGGAAGATGAAATGAATGAAATGAAGCGAGAAGGGAAGTTTAGAGAAAAAAGAATAAAAAGAAACGAACAAAGCCTCCAAGAAATATGGGACTATGTGAAAAGACCAAATCTACGTCTGATTGGTGTACCTGAAAGTGACGGGGAGAATGGAACCAAGTTGGAAAACACTCTGCAGGATATTATCCAGGAGAACTTCCCCAATCTAGCAAGGCAGGCCAACATTCAGATTCAGGAAATACAGAGAACGCCACAAAGATACTCCTCGAGAAGAGCAACTCCAAGACACATAATTGTCAGATTCACCAAAGTTGAAATGAAGGAAAAAATGTTAAGGGCAGCCAGAGAGAAAGGTCGGGTTACCCACAAAGGGAAGCCCATCAGACTAACAGCNGATCTCTCGGCAGAAACTCTACAAGCCAGAAGAGAGTGGGGGCCAATATTCAACATTCTTAAAGAAAAGAATTTTCAACCCAGAATTTCATATCCAGCCAAACTAAGCTTCATAAGTGAAGGAGAAATAAAATACTTTACAGACAAGCAAATGCTGAGAGATTTTGTCACCACCAGGCCTGCCCTAAAAGAGCTCCTGAAGGAAGCACTAAACATGGAAAGGAACAACCGGTACCAGCCACTGCAAAAACATGCCAAATTGTAAAGACCATCGAGGCTAGGAAGAAACTGCATCAACTAACGAGCAAAATAACCAGCTAACATCATAATGACAGGATCAAATTCACACATAACAATATTAACCTTAAATGTAAATGGGCTAAATGCTCCAATTAAAAGACACAGACTGGCAAATTGGATAAAGAGTCAAGACCCATCAGTGTGCTGTATTCAGGAAACCCATCTCACGTGCAGAGAC
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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 |
|---|---|---|---|---|---|---|
| L1P1_5end | TCF7L1 | 1001 | 1012 | + | 16.59 | AAAGACCAAAGG |
| L1P1_5end | KLF5 | 435 | 444 | - | 16.10 | GCCCCTCCCC |
| L1P1_5end | MAZ | 436 | 443 | - | 16.08 | CCCCTCCC |
| L1P1_5end | SP1 | 435 | 443 | + | 16.06 | GGGGAGGGG |
| L1P1_5end | KLF16 | 434 | 444 | - | 15.95 | GCCCCTCCCCC |
| L1P1_5end | REF6 | 1038 | 1046 | + | 15.93 | AAAACAGAG |
| L1P1_5end | DOF3.6 | 1434 | 1454 | - | 15.89 | TTTCTTTTTATTCTTTTTTCT |
| L1P1_5end | DOF5.1 | 1446 | 1464 | + | 15.89 | AAAAAGAAACGAACAAAGC |
| L1P1_5end | SP4 | 435 | 443 | + | 15.85 | GGGGAGGGG |
| L1P1_5end | Thap11 | 40 | 53 | + | 15.69 | TCTACAGCTCCCAG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
