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 | ZNF140 | 368 | 386 | - | 31.44 | AGGAGTGGAATTGCTGGGT |
| L1ME2_3end | ZNF8 | 520 | 539 | - | 26.21 | GTATGAATATACCACAATTT |
| L1ME2_3end | PATZ1 | 737 | 747 | + | 17.64 | GGGGGTGGGGG |
| L1ME2_3end | ZNF281 | 737 | 746 | + | 17.16 | GGGGGTGGGG |
| L1ME2_3end | ZNF530 | 751 | 764 | + | 17.08 | GACTGGAAAGGGGC |
| L1ME2_3end | GAF1 | 40 | 54 | + | 16.82 | AATAAAAAGACAAAC |
| L1ME2_3end | NEUROG2 | 411 | 420 | + | 16.62 | AACATATGTC |
| L1ME2_3end | SVP | 468 | 483 | + | 16.52 | AGCCCAAAACTGGAAA |
| L1ME2_3end | MGP | 43 | 55 | + | 16.32 | AAAAAGACAAACA |
| L1ME2_3end | AP3 | 471 | 483 | + | 16.10 | CCAAAACTGGAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
