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 | ZNF93 | 852 | 865 | - | 21.25 | GGTATCAGCAGCGG |
| L1P1_5end | ZNF354A | 2147 | 2166 | + | 20.38 | TAAATGTAAATGGGCTAAAT |
| L1P1_5end | ZNF281 | 434 | 443 | + | 20.07 | GGGGGAGGGG |
| L1P1_5end | DOF3.6 | 1435 | 1455 | - | 19.68 | GTTTCTTTTTATTCTTTTTTC |
| L1P1_5end | ZNF136 | 1856 | 1870 | - | 19.65 | AAATTCTGGGTTGAA |
| L1P1_5end | ZNF148 | 434 | 443 | - | 18.97 | CCCCTCCCCC |
| L1P1_5end | PATZ1 | 434 | 444 | + | 18.42 | GGGGGAGGGGC |
| L1P1_5end | DOF5.1 | 1437 | 1455 | + | 17.47 | AAAAAGAATAAAAAGAAAC |
| L1P1_5end | CDF5 | 1435 | 1455 | - | 17.02 | GTTTCTTTTTATTCTTTTTTC |
| L1P1_5end | Six3 | 1376 | 1386 | + | 17.00 | AAAGGGTATCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
