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 | ETV5::FOXI1 | 2072 | 2083 | + | 15.67 | GTAAAGAGGAAG |
| L1PB_orf2 | ZNF324 | 1708 | 1721 | + | 15.64 | ATGCAGGGATGGTT |
| L1PB_orf2 | ci | 3091 | 3101 | + | 15.64 | AGACAACCCAC |
| L1PB_orf2 | AT3G10580 | 85 | 98 | + | 15.62 | GAATGGATAAGAAT |
| L1PB_orf2 | STAT1 | 1294 | 1302 | - | 15.62 | TTCCAGGAA |
| L1PB_orf2 | NUC | 269 | 280 | - | 15.53 | CTTTGTCTTTTT |
| L1PB_orf2 | TRB1 | 2127 | 2135 | + | 15.53 | AAACCCTAA |
| L1PB_orf2 | NDT80 | 626 | 634 | + | 15.46 | GCCACAAAA |
| L1PB_orf2 | IDD11 | 269 | 280 | + | 15.44 | AAAAAGACAAAG |
| L1PB_orf2 | TBX15 | 955 | 962 | - | 15.44 | AGGTGTGA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
