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 | Stat2 | 226 | 235 | + | 15.65 | AAAACAGAAA |
| L1MB3_3end | JKD | 641 | 652 | - | 15.41 | ATTTGTCCTTTT |
| L1MB3_3end | Bcl11B | 176 | 184 | + | 15.12 | AAACCACAA |
| L1MB3_3end | IDD11 | 641 | 652 | + | 15.11 | AAAAGGACAAAT |
| L1MB3_3end | IDD1 | 641 | 652 | - | 14.92 | ATTTGTCCTTTT |
| L1MB3_3end | NUC | 641 | 652 | - | 14.86 | ATTTGTCCTTTT |
| L1MB3_3end | ZNF320 | 734 | 753 | + | 14.76 | TGGGGGGAGGGGGGAATGGG |
| L1MB3_3end | CCA1 | 426 | 433 | - | 14.72 | AAATATCT |
| L1MB3_3end | Aef1 | 36 | 43 | + | 14.61 | CAACAACA |
| L1MB3_3end | Klf15 | 735 | 756 | - | 14.55 | CTCCCCATTCCCCCCTCCCCCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
