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 | Rarg | 599 | 615 | - | -0.84 | AATGTCCTCAAGGTTCA |
| L1MB3_3end | ZNF410 | 892 | 907 | - | -1.05 | ACATAACATAAAATTT |
| L1MB3_3end | BPC1 | 699 | 722 | + | -1.48 | TAGAGACAGAAAGTAGAATGGTGG |
| L1MB3_3end | IRF9 | 223 | 237 | + | -3.60 | AAAAAAACAGAAAAT |
| L1MB3_3end | EWSR1-FLI1 | 738 | 755 | + | -15.54 | GGGAGGGGGGAATGGGGA |
| L1MB3_3end | AT4G12670 | 755 | 783 | - | -17.53 | TGAAACTCTGTACCCATTAAACAATAACT |
| L1MB3_3end | BPC5 | 698 | 727 | + | -48.18 | ATAGAGACAGAAAGTAGAATGGTGGTTGCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
