L1ME2_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000294 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Eutheria |
| Length | 911 |
| Kimura value | 25.48 |
| Tau index | 0.8717 |
| Description | 3' end of L1 retrotransposon, L1ME2_3end subfamily |
| Comment | - |
| Sequence |
CTTGTATCCAGAATATATAAAGAACTCCTACAACTCAATAATAAAAAGACAAACAACCCAATTAAAAAATGGGCAAAAGACTTGAACAGACACTTCACAAAAGAAGATATACGAATGGCCAATAAGCACATGAAAAGGTGCTCAACATCATTAGTCATCAGGGAAATGCAAATTAAAACCACAATGAGATACCACTNCACACCCACTAGAATGGCTAAAATTAAAAAGACTGACAATACCAAATGTTGGCGAGGATGTGGAGCAACTGGAACTCTCATACATTGCTGGTGGGAGTGTAAAATGGTACAACCACTTTGGAAAACNGTTTGGCAGTTTCTTATAAAGTTAAACATACACCTACCCTATGACCCAGCAATTCCACTCCTAGGTATTTACCCAAGAGAAATGAAAACATATGTCCACAAAAAGACTTGTACANGAATGTTCATAGCAGCTTTATTCATAATAGCCCAAAACTGGAAACAACCCAAATGTCCATCAACAGGNGAATGGATAAACAAATTGTGGTATATTCATACAATGGAATACTACTCAGCAATAAAAAGGAACGAACTACTGATACACGCAACAACATGGATGAATCTCAAAAACATTATGCTGAGCGAAAGAAGCCAGACACAAAAGAGTACATACTGTATGATTCCATTTATATGAAGTTCTAGAACAGGCAAAACTAATCTATGGTGATAGAAATCAGAACAGTGGTTGCCTCCGGGGGGGTGGGGGATTGACTGGAAAGGGGCACGAGGGAACTTTCTGGGGTGATGGAAATGTTCTATATCTTGATTGGGGTGGTGGTTACACGGGTGTATACATTTGTCAAAACTCATCGAACTGTACACTTAAGATCTGTGCATTTTATTGTATGTAAATTATACCTCAANAAAAAA
|
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 |
|---|---|---|---|---|---|---|
| L1ME2_3end | ZNF460 | 733 | 748 | - | 5.28 | TCCCCCACCCCCCCGG |
| L1ME2_3end | DOF4.3 | 447 | 459 | - | 5.05 | TAAAGCTGCTATG |
| L1ME2_3end | RXRG | 359 | 372 | - | 4.17 | TGGGTCATAGGGTA |
| L1ME2_3end | RAX3 | 354 | 365 | - | 3.84 | TAGGGTAGGTGT |
| L1ME2_3end | Rxra | 359 | 372 | - | 3.23 | TGGGTCATAGGGTA |
| L1ME2_3end | RREB1 | 733 | 751 | - | 3.00 | CAATCCCCCACCCCCCCGG |
| L1ME2_3end | GLIS3 | 730 | 743 | - | 2.72 | CACCCCCCCGGAGG |
| L1ME2_3end | RXRB | 359 | 372 | - | 1.71 | TGGGTCATAGGGTA |
| L1ME2_3end | ZNF410 | 518 | 533 | - | -3.16 | ATATACCACAATTTGT |
| L1ME2_3end | NR1H2::RXRA | 357 | 373 | - | -4.10 | CTGGGTCATAGGGTAGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
