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 | ZNF8 | 520 | 539 | - | 31.88 | GTATGGATGTACCACAGTTT |
| L1MD2_3end | ZNF558 | 68 | 96 | + | 22.09 | AATGGGCAAAAGACATGAACAGACATTTC |
| L1MD2_3end | daf-12 | 884 | 897 | - | 20.16 | GTGTGTGTGTGTGT |
| L1MD2_3end | KLF9 | 763 | 773 | - | 19.85 | GCCACACCCAC |
| L1MD2_3end | dar1 | 763 | 773 | - | 19.80 | GCCACACCCAC |
| L1MD2_3end | cg | 884 | 894 | + | 19.33 | ACACACACACA |
| L1MD2_3end | cg | 886 | 896 | + | 19.33 | ACACACACACA |
| L1MD2_3end | cg | 888 | 898 | + | 19.33 | ACACACACACA |
| L1MD2_3end | ZNF382 | 184 | 207 | + | 18.66 | ATGAGATATCACTACACACCTATC |
| L1MD2_3end | daf-12 | 882 | 895 | - | 18.49 | GTGTGTGTGTGTAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
