L1MB3_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000269 |
|---|---|
| TE superfamily | L1 |
| TE class | 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 | MEF2C | 346 | 356 | + | 14.54 | TTAAAAATAGA |
| L1MB3_3end | INSM1 | 724 | 735 | + | 14.53 | TGCCAGGGGCTG |
| L1MB3_3end | AT1G74840 | 509 | 517 | + | 14.47 | AATGGATAA |
| L1MB3_3end | CEBPD | 828 | 835 | + | 14.47 | TTGCACAA |
| L1MB3_3end | DREB2E | 326 | 335 | - | 14.39 | AACCGCCATA |
| L1MB3_3end | KLF16 | 736 | 746 | - | 14.36 | CCCCCTCCCCC |
| L1MB3_3end | Klf6-7-like | 728 | 747 | - | 14.36 | CCCCCCTCCCCCCAGCCCCT |
| L1MB3_3end | ZBTB26 | 803 | 810 | - | 14.32 | CTCCAGAA |
| L1MB3_3end | SP2 | 737 | 745 | + | 14.29 | GGGGAGGGG |
| L1MB3_3end | Klf15 | 730 | 751 | - | 14.28 | CATTCCCCCCTCCCCCCAGCCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
