L1PB_orf2
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000354 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Haplorrhini |
| Length | 3294 |
| Kimura value | 9.23 |
| Tau index | 0.9004 |
| Description | ORF2 from L1 retrotransposon, L1PB_orf2 subfamily |
| Comment | - |
| Sequence |
ATGAATGGAATAGTACCTCACATCTCAATACTAACGTTGAATGTAAATGGCCTAAATGCTCCACTTAAAAGATACAGAATNGCAGAATGGATAAGAATTCACCAACCAAGTATCTGCTGCCTTCAAGAGACTCACCTAACACATAAGGACTCACATAAACTTAAGGTAAAGGGGTGGAAAAAGACATTCCATGCAAATGGACACCAAAAGCGAGCAGGAGTAGCTATTCTTATATCAGACAAAACAAACTTTAAAGCAACAGCAGTTAAAAAAGACAAAGAGGGACATTATATAATGATAAAAGGNCTNGTCCAACAGGAAAATATCACAATCCTAAATATATATGCACCTAACACTGGAGCTCCCAAATTTATAAAACAATTACTANTAGACCTAAGAAATGAGATAGACAGCAACACAATAATAGTGGGGGACTTCAATACTCCACTGACAGCACTAGACAGGTCATCAAGACAGAAAGTCAACAAAGAAACAATGGACTTAAACTATACCCTGGAACAAATGGACTTAACAGATATTTACAGAACATTCTACCCAACAACCGCAGAATATACATTCTATTCANCAGCGCATGGAACNTTCTCCAAGATAGACCATATGATAGGCCACAAAACGAGCCTCAATAAATTTAAGAAAATCGAAATTATATCAAGCACTCTCTCAGACCACAGTGGAATAAAACTGGAAATCAACTCCAAAAGGAACCCTCAAAACCATGCAAATACATGGAAATTAAATAACCTGCTCCTGAATGATCATTGGGTCAANAATGAAATCAAGATGGAAATTNAAAAATTCTTCGAACTGAACGACAATAGTGACACAACCTATCAAAACCTCTGGGATACAGCAAAGGCGGTGCTAAGAGGAAAGTTCATAGCCCTAAATGCCTACATCAAAAAGTCTGAAAGAGCACAAACAGACAATCTAAGGTCACACCTCAAGGAACTAGAGAAACAAGAACAAACCAAACCCAAACCCAGCAGAAGAAAGGAAATAACCAAGATCAGAGCAGAACTAAATGAAATTGAAACAAACAAAAAAATACAAAAGATAAATGAAACAAAAAGCTGGTTCTTTGAAAAGATAAATAAAATTGATAGACCATTAGCGAGATTAACCAAGAAAAGAAGAGAGAAGATCCAAATAAGCTCAATTAGAAACGAAACGGGAGATATTACAACCGACACCACAGAAATACAAAAGATCATTCAAGGCTACTATGAACACCTTTACGCGCATAAACTAGAAAACCTAGAGGAGATGGATAAATTCCTGGAAANATACAACCCTCCTAGNTTAAATCAGGAAGAANTAGANACCCTGAACAGACCAATAACAAGCAGCGAGATTGAAATGGTAATTNAAAAATTACCAACAAAAAAAAGTCCAGGACCAGACGGATTCACAGCNGAATTCTACCAGACATTCAAAGAAGAATTGGTACCAATCCTATTGACACTATTCCACAAGATAGAGAAAGAGGGAATCCTCCCTAAATCATTCTATGAAGCCAGTATCACCCTAATACCAAAACCAGGAAAGGACATAACNAAAAAAGAAAACTACAGACCAATATCCCTGATGAACATAGATGCNAAAATCCTCAACAAAATACTAGCTAACCGAATCCAACAGCATATCAAAAAGATAATCCACCATGATCAAGTGGGTTTCATACCAGGGATGCAGGGATGGTTTAACATACGCAAGTCAATAAATGTGATACACCACATAAACAGAATTAAAAACAAAAATCACATGATCATCTCAATAGATGCAGAAAAAGCATTTGACAAAATCCAGCATCCCTTTATGATTAAAACCCTCAGCAAAATCGGCATANAAGGGACATACCTTAANGTAATAAAAGCCATCTATGACAAACCCACAGCCAACATNATACTGAATGGGGAAAAGTTGAAAGCATTCCCCCTGAGAACTGGAACAAGACAAGGATGCCCACTCTCACCACTTCTNTTCAACATAGTACTGGAAGTCCTAGCCAGAGCAATCAGACAAGAGAAAGAAATAAAGGGCATCCAAATCGGTAAAGAGGAAGTCAAACTGTCGCTGTTTGCTGATGATATGATCGTNTACCTAGAAAACCCTAAAGACTCCTCCAGAAAGCTCCTAGAACTGATAAANGAATTCAGCAAAGTTTCNGGATACAAAATTAATGTACACAAATCAGTAGCTCTNCTATACACCAACAGCGACCAAGCTGAGAATCAAATCAAGAACTCAACCCCTTTTACAATAGCTGCAAAAAAAATAAAATACTTAGGAATATACCTAACCAAGGAGGTGAAAGACCTCTACAAGGAAAACTACAAAACACTGCTGAAAGAAATCATAGACGACACAAACAAATGGAAACACATCCCATGCTCATGGATGGGTAGAATCAATATTGTGAAAATGACCATACTGCCAAAAGCAATCTACAAATTCAATGCAATTCCCATCAAAATACCACCATCATTCTTCACAGAACTAGAAAAAACAATCCTAAAATTCATATGGAACCAAAAAAGAGCCCGCATAGCCAAAGCAAGACTAAGCAAAAAGAACAAATCTGGAGGCATCACATTACCCGACTTCAAACTATACTATAAGGCCATAGTCACCAAAACAGCATGGTACTGGTATAAAAATAGGCACATAGACCAATGGAACAGAATAGAGAACCCAGAAATAAACCCAAATACTTACAGCCAACTGATCTTCGACAAAGCAAACAAAAACATAAAGTGGGGAAAGGACACCCTATTCAACAAATGGTGCTGGGATAATTGGCAAGCCACATGTAGGAGAATGAAACTGGATCCTCATCTCTCACCTTATACAAAAATCAACTCAAGATGGATCAAGGACTTAAATCTAAGACCTGAAACCATAAAAATTCTAGAAGATAACATCGGAAAAACCCTTCTAGACATTGGCTTAGGCAAGGACTTCATGACCAAGAACCCAAAAGCAAATGCAACAAAAACAAAGATAAATAGNTGGGACTTAATTAAACTAAAGAGCTTCTGCACGGCAAAAGGAACAGTCAGCAGAGTAAACAGACAACCCACAGAGTGGGAGAAAATCTTCACAATCTATACATCTGACAAAGGACTAATATCCAGAATCTACAANGAACTCAAACAAATCAGCAAGAAAAAAACAAACAATCCCATCAAAAAGTGGGCTAAGGACATGAATAGACAATTCTCAAAAGAAGATATACAAATGGCCAACAAACATATGAAAAAATGCTCAACATCA
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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 |
|---|---|---|---|---|---|---|
| L1PB_orf2 | MYB13 | 99 | 108 | + | 16.42 | TCACCAACCA |
| L1PB_orf2 | WRKY17 | 478 | 487 | + | 16.32 | AAAGTCAACA |
| L1PB_orf2 | CDF5 | 2042 | 2062 | - | 16.30 | TGCCCTTTATTTCTTTCTCTT |
| L1PB_orf2 | Msgn1 | 2797 | 2806 | + | 16.17 | AACAAATGGT |
| L1PB_orf2 | SPIC | 2073 | 2085 | + | 16.14 | TAAAGAGGAAGTC |
| L1PB_orf2 | WRKY29 | 478 | 486 | + | 15.92 | AAAGTCAAC |
| L1PB_orf2 | ZNF547 | 3000 | 3012 | + | 15.86 | AGCAAATGCAACA |
| L1PB_orf2 | MGP | 269 | 281 | + | 15.76 | AAAAAGACAAAGA |
| L1PB_orf2 | CDF5 | 1058 | 1078 | - | 15.76 | TTATCTTTTGTATTTTTTTGT |
| L1PB_orf2 | HSF2 | 2922 | 2934 | - | 15.69 | TTCTAGAATTTTT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
