L1MB3_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000269 |
|---|---|
| TE superfamily | L1 |
| TE order | LINE |
| Species | Boreoeutheria |
| Length | 930 |
| Kimura value | 17.20 |
| Tau index | 0.8591 |
| Description | 3' end of L1 retrotransposon, L1MB3_3end subfamily |
| Comment | ORF2 ends at bp ~675 |
| Sequence |
TTAATATCCAGAATATATAAAGAACTCCTACAACTCAACAACAAAAAAACAAACAACCCGATTNAAAAATGGGCAAAGGACTTGAATAGACATTTCTCCAAAGAAGATATACAAATGGCCAATAAGCACATGAAAAGATGCTCAACATCACTAATCATTAGGGAAATGCAAATCAAAACCACAATGAGATACCACCTCACACCCATTAGGATGGCTACTATCAAAAAAACAGAAAATAACAAGTGTTGGCGAGGATGTGGAGAAATTGGAACCCTTGTGCACTGCTGGTGGGAATGTAAAATGGTGCAGCCGCTGTGGAAAACAGTATGGCGGTTCCTCAAAAAATTAAAAATAGAATTACCATATGATCCAGCAATTCCACTTCTGGGTATATACCCAAAAGAATTGAAAGCAGGGNCTCGAANAGATATTTGTACACCCATGTTCATAGCAGCATTATTCACAATAGCCAAAAGGTGGAAGCAACCCAAGTGTCCATCGACGGATGAATGGATAAACAAAATGTGGTATATACATACAATGGAATATTATTCAGCCTTAAAAAGGAAGGAAATTCTGACACATGCTACAACATGGATGAACCTTGAGGACATTATGCTAAGTGAAATAAGCCAGTCACAAAAGGACAAATACTGTATGATTCCACTTATATGAGGTACCTAGAGTAGTCAAATTCATAGAGACAGAAAGTAGAATGGTGGTTGCCAGGGGCTGGGGGGAGGGGGGAATGGGGAGTTATTGTTTAATGGGTACAGAGTTTCAGTTTNGGAAGATGAAAAAGTTCTGGAGATGGATGGTGGTGATGGTTGCACAACAATGTGAATGTACTTAATGCCACTGAACTGTACACTTAAAAATGGTTAAGATGGTAAATTTTATGTTATGTATATTTTACCACAATTAAAAAAA
|
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 |
|---|---|---|---|---|---|---|
| L1MB3_3end | ZNF8 | 520 | 539 | - | 31.44 | GTATGTATATACCACATTTT |
| L1MB3_3end | ZNF140 | 368 | 386 | - | 23.78 | AGAAGTGGAATTGCTGGAT |
| L1MB3_3end | ZNF281 | 736 | 745 | + | 20.07 | GGGGGAGGGG |
| L1MB3_3end | IDD4 | 639 | 653 | + | 19.35 | ACAAAAGGACAAATA |
| L1MB3_3end | IDD6 | 638 | 653 | - | 19.31 | TATTTGTCCTTTTGTG |
| L1MB3_3end | IDD6 | 638 | 653 | - | 19.30 | TATTTGTCCTTTTGTG |
| L1MB3_3end | ZNF148 | 736 | 745 | - | 18.97 | CCCCTCCCCC |
| L1MB3_3end | PATZ1 | 736 | 746 | + | 18.83 | GGGGGAGGGGG |
| L1MB3_3end | PRDM9 | 734 | 753 | + | 18.39 | TGGGGGGAGGGGGGAATGGG |
| L1MB3_3end | IDD5 | 639 | 652 | - | 17.88 | ATTTGTCCTTTTGT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
