L1PBa1_5end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000351 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Simiiformes |
| Length | 1592 |
| Kimura value | 10.18 |
| Tau index | 0.9413 |
| Description | 5' end of L1 retrotransposon, L1PBa1_5end subfamily |
| Comment | - |
| Sequence |
GGGGATCATGGCGGACGGGAGGCAGGACTAGATTGCAGCTCCGGACAGAGCAGCGTGCGGAGGCTCGCATCGTGAATTTTAGCTCCAGANCGACTGCAAGAACAAACCAGCAATCCCGAGAGGACCCACAGACCCTCTGAAGGAAGCGGACTGCTCCTGCAGGACCCGGGAGACACCCCAAATACTGTGAGTGCCCCAACTGCGGAAGTGGGAAAGGGAGACCCTCCTCTCCCGAACACACACCCCCACTGGAGAAGCTGAAGGTCTGTTTGCGGGAGAAGTTTCCGACCTTACCTGGAGCTGAGTCAATTTAGAGAGCCGAGCGAAATACAGGGGTAGAGGAAGCAGCAGAAAGGCCCTGGGAGCTCGCTGGGTCCCCAAGCAGGCCATTCCTGCCTGGCACCACAGGGATCCNTCGGGAGGGCGGCCAGAGGAGCAGGGGGTAAAACNCCACAGGGAGAAGGAAATCTCCAGCTGAACTTTGTAACAATTTGAACCGGGCGAGAAGCCTCCTGGCCAGAACTCGGGGGAGGGCGCGAATCCGGCGTGCAGACTCCACAGGCGGGGGAAGAACCAAAGCCCTTTTCTTTCGCAGCTGGGAGGCGGGTAGCCTGGGGCAAGTTCTCAAGCCCGNCTCGCCCNCCGCCTGGAAACAGACTCGGGGCTGTTGGGGGGGGCACGGTGGGAGTGAGACCGGCCCTTCGGTTTGCGTGGGAGCTGGGTGAGGCCTGTGACTGCCGGCTTTCCCCCACTTCCCTGACAACCTGCATGACTCAGCAGAGGCAGCCATAATCCTCCTAGGTACACAACTCCANTGACCTGGGAACCTCACCCCCATCCCCCACAGCAGCCGCAGCAAGACCCGCCCAAGGAGAGTCTGAGCTCAGACACGCCTAGCCCCGCCCCCACCTGATGGTCCTTCCCTACCCACCCTGGTAGCNGAAGACAAAGGGCATATAATCTTGGGAGTTCTAGGGCCCCGCCCACCGCCGGTTCCTCTCCATACTACCACAGCTGATGCTCTCTGGAAAGCGCCACCTCCTGGCAGGAGGCCAACCAGCACAAAAATAGAGCATTAAACCACCAAAGCTAAGAACCCTCACGGAGTCCATTNCACCCCCCGCCACCTCCACCGGAACAGGCGCTGGTATCCACGGCTGAGAGACCCATAGACGGTTCACATCACAGGACTCTGTGCAGACAACCCCCAGTACCAGCCCGGAGCCGGGTAGACTCGCTGGGTGGCTAGACCCAGAAGAGAGACAACAATCACTGCAGTTCGGCTCACAGGAAGCCACATCCATAGGAAAAGGGGGAGAGTACTACATCAAGGGAACACCCCGTGGGACAAAAGAATCTGAACAACAGCCTTCAGCCCTAGACCTTCCCTCTGACAGAGCCTACCCAAATGAGAAGGAACCAGAAAACCAACCCTGGTAATATGACAAAACAAGGCTCTTTAACACCCCCCAAAAATCACACTAGCTCACCAGCAATGGATCCAAACCAAGAAGAAATCCCTGATTTACCTGAAAAAGAATTCAGGAGGTTAGTTATTAAGCTAATCAGGGAGGCACCAGAGAAAGGCGAAG
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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 |
|---|---|---|---|---|---|---|
| L1PBa1_5end | CTCF | 1033 | 1063 | - | 21.21 | GTGCTGGTTGGCCTCCTGCCAGGAGGTGGCG |
| L1PBa1_5end | Bach1::Mafk | 768 | 779 | + | 20.92 | CATGACTCAGCA |
| L1PBa1_5end | MAFG::NFE2L1 | 769 | 779 | + | 20.52 | ATGACTCAGCA |
| L1PBa1_5end | NFIC::TLX1 | 1043 | 1056 | + | 20.35 | TGGCAGGAGGCCAA |
| L1PBa1_5end | MAF::NFE2 | 769 | 779 | + | 20.13 | ATGACTCAGCA |
| L1PBa1_5end | CTCF | 1032 | 1046 | - | 19.61 | GCCAGGAGGTGGCGC |
| L1PBa1_5end | Nfe2l2 | 769 | 779 | + | 19.55 | ATGACTCAGCA |
| L1PBa1_5end | NFIC | 1042 | 1056 | - | 19.41 | TTGGCCTCCTGCCAG |
| L1PBa1_5end | Spps | 897 | 907 | + | 19.34 | GCCCCGCCCCC |
| L1PBa1_5end | PATZ1 | 897 | 907 | - | 19.16 | GGGGGCGGGGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
