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 | JKD | 269 | 280 | - | 15.42 | CTTTGTCTTTTT |
| L1PB_orf2 | WRKY71 | 477 | 486 | + | 15.42 | GAAAGTCAAC |
| L1PB_orf2 | WRKY8 | 477 | 487 | + | 15.36 | GAAAGTCAACA |
| L1PB_orf2 | TRB2 | 899 | 909 | + | 15.35 | TAGCCCTAAAT |
| L1PB_orf2 | AT1G19000 | 85 | 97 | + | 15.27 | GAATGGATAAGAA |
| L1PB_orf2 | AT5G56840 | 85 | 98 | - | 15.26 | ATTCTTATCCATTC |
| L1PB_orf2 | TBX1 | 955 | 962 | - | 15.16 | AGGTGTGA |
| L1PB_orf2 | IDD1 | 269 | 280 | - | 15.13 | CTTTGTCTTTTT |
| L1PB_orf2 | MYB17 | 98 | 108 | + | 15.08 | TTCACCAACCA |
| L1PB_orf2 | WRKY45 | 477 | 486 | + | 15.07 | GAAAGTCAAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
