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 | ZNF382 | 1191 | 1214 | + | 28.59 | GGGAGATATTACAACCGACACCAC |
| L1PB_orf2 | CG7928 | 1701 | 1712 | - | 19.30 | TGCATCCCTGGT |
| L1PB_orf2 | ZNF558 | 3212 | 3240 | + | 18.85 | AGTGGGCTAAGGACATGAATAGACAATTC |
| L1PB_orf2 | DOF3.6 | 1058 | 1078 | - | 17.41 | TTATCTTTTGTATTTTTTTGT |
| L1PB_orf2 | ZNF680 | 1452 | 1462 | + | 17.27 | CAAAGAAGAAT |
| L1PB_orf2 | SPIB | 2074 | 2086 | - | 17.14 | TGACTTCCTCTTT |
| L1PB_orf2 | Stat92E | 1292 | 1303 | + | 16.99 | AATTCCTGGAAA |
| L1PB_orf2 | AT2G38090 | 86 | 98 | + | 16.95 | AATGGATAAGAAT |
| L1PB_orf2 | SGR5 | 268 | 280 | + | 16.52 | AAAAAAGACAAAG |
| L1PB_orf2 | Spi1 | 2074 | 2086 | + | 16.46 | AAAGAGGAAGTCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
