L1ME4c_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000305 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Eutheria |
| Length | 830 |
| Kimura value | 31.34 |
| Tau index | 0.7823 |
| Description | 3' end of L1 retrotransposon, L1ME4c_3end subfamily |
| Comment | - |
| Sequence |
TTAATATCTNTANTATATAAAGAGCTCATTCAAATTGATAAGAAAAANATCAAGACCCCAATAGATAAATGGGCAAAGGACATGAACAGACAATTCACANAAGAGGAAATACAANTAGTAAACAAACACATGGAAAAATGTTCAACCTCGCTAGTAATCAAAGAAATGCAAATTAAAGCAACAATGAGATACCATTTTACGCCTATTAAATTAGCAAAAATTTAAAAAATTGATAATACCCAATGCTGGCGAGGNTGCGGTGAAACTGGTACNCTCATACATTGCTGGTGGCANTGTAAATTGGTACAACCCTTTTGGAAAGCAATTTGGCAATACGTATCAAGAGCCATAAAAATGTTCATACCCTTTGACCCAGTAATTCCACTTCTGGGAATTTATCCTAAGGAAATAATTCAAAAGAAGGAAAAAGCTATATGCACGAAGATGTTCATTGCAGCGTTATTTATAATAGCGAAAAATTGGAAACAACCTAAATGTCCAACAATAGGGGAATGGTTAAGTAAATTATGGTACATCNACTCGATGGAATATTATGCAGCCATTAAAAATGATAATTATGAAGACTATGTAGCAACATGGAAAATGTTTATGATATAATGTTAAGTGAAAAAAGCAGAATACAAAATTGTATNTACGCTATGATTACAACTATGTAAAAATTACGTATGCATATGGACAAGGACTGGAAGGGAACACGNAAAAATGAAAACAGTTGATTTGTTAGGGTGGTGGGATTATGGGTGANTTTTTCTTCTTTTTNAAAATTTTCTTTAATGTTGTTATAATGTTGTTTGTGCAATAAATAAAAA
|
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 |
|---|---|---|---|---|---|---|
| L1ME4c_3end | ZNF558 | 68 | 96 | + | 19.17 | AATGGGCAAAGGACATGAACAGACAATTC |
| L1ME4c_3end | ZNF140 | 371 | 389 | - | 18.35 | AGAAGTGGAATTACTGGGT |
| L1ME4c_3end | THRB | 362 | 374 | - | 17.38 | GGGTCAAAGGGTA |
| L1ME4c_3end | NR2F1 | 362 | 374 | - | 16.36 | GGGTCAAAGGGTA |
| L1ME4c_3end | Stat5b | 386 | 394 | - | 16.36 | TTCCCAGAA |
| L1ME4c_3end | Hnf4 | 362 | 374 | - | 16.26 | GGGTCAAAGGGTA |
| L1ME4c_3end | cad | 345 | 355 | + | 16.08 | AGCCATAAAAA |
| L1ME4c_3end | DOF3.4 | 629 | 645 | - | 16.02 | TTTGTATTCTGCTTTTT |
| L1ME4c_3end | PPARA::RXRA | 362 | 378 | - | 15.70 | TACTGGGTCAAAGGGTA |
| L1ME4c_3end | egl-27 | 33 | 43 | - | 15.61 | TCTTATCAATT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
