L1MD2_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000287 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Eutheria |
| Length | 1106 |
| Kimura value | 22.37 |
| Tau index | 0.8586 |
| Description | 3' end of L1 retrotransposon, L1MD2_3end subfamily |
| Comment | ORF2 ends at bp ~675 |
| Sequence |
CTNGTATCTAGAATATATAAAGAACTCTCAAAACTCAACAGTAAAAAAACAAACAATCCAATTAGAAAATGGGCAAAAGACATGAACAGACATTTCACCGAAGAGGATATACAGATGGCAAATAAGCACATGAAAAGATGTTCAACATCATTAGCCATTAGGGAAATGCAAATTAAAACCACAATGAGATATCACTACACACCTATCAGAATGGCTAAAATAAAAAATAGTGACAACACCAAATGCTGGCGAGGATGCGGAGAAACTGGATCACTCATACATTGCTGGTGGGAATGTAAAATGGTACAGCCACTCTGGAAAACAGTTTGGCAGTTTCTTATAAAACTAAACATGCANTTACCATACGACCCAGCAATTGCACTCTTGGGCATTTATCCCAGAGAAATGAAAACTTATGTTCACACAAAAACCTGTACACGAATGTTCATAGCAGCTTTATTCGTAATAGCCAAAAACTGGAAACAACCCAAATGTCCTTCAACGGGTGAATGGTTAAACAAACTGTGGTACATCCATACCATGGAATACTACTCAGCAATAAAAAGGAACGAACTATTGATACACGCAACAACTTGGATGGATCTCAAGGGAATTATGCTGAGTGAAAAAAGCCAATCTCAAAAGGTTACATACTGTATGATTCCATTTATATAACATTCTTGAAATGACAAAATTATAGAGATGGAGAACAGATTAGTGGTTGCCAGGGGTTAGGGATGGGGGTGGNGNGGGGGAAGGGAGGTGGGTGTGGCTATAAAAGGGCAGCACGAGGGATCCTTGTGGTGATGGAACNGTTCTGTATCTTGACTGTGGTGGTGGNTACACGAATCTACACATGTGATAAAATTGCATAGAACTAAATACACACACACACACATGAGTACANGTAAAACTGGNGAAATCTGAATAAGATCGGTGGATTGTATCAATGTCAATTTCCTGGTTNTGATATTGTACTATAGTTNTGCAAGATGTTACCATTGGGGGAAACTGGGTGAAGGGTACACGGGATCTCTCTGTATTATTTCTTACAACTNCATGTGAATCTACAATTATCTCAAAATAAAAAGTTTAATTTAAAAAAA
|
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 |
|---|---|---|---|---|---|---|
| L1MD2_3end | Prdm5 | 701 | 711 | - | 18.28 | GTTCTCCATCT |
| L1MD2_3end | ZNF140 | 368 | 386 | - | 18.24 | AAGAGTGCAATTGCTGGGT |
| L1MD2_3end | Klf15 | 751 | 772 | - | 17.77 | CCACACCCACCTCCCTTCCCCC |
| L1MD2_3end | daf-12 | 886 | 899 | - | 17.51 | ATGTGTGTGTGTGT |
| L1MD2_3end | ZNF281 | 751 | 760 | + | 17.12 | GGGGGAAGGG |
| L1MD2_3end | cg | 882 | 892 | + | 16.98 | ATACACACACA |
| L1MD2_3end | Klf3/8/12 | 765 | 773 | - | 15.86 | GCCACACCC |
| L1MD2_3end | KLF11 | 763 | 772 | - | 15.73 | CCACACCCAC |
| L1MD2_3end | insv | 56 | 67 | - | 15.69 | TTCTAATTGGAT |
| L1MD2_3end | insv | 56 | 67 | + | 15.69 | ATCCAATTAGAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
