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 | IDD7 | 639 | 652 | + | 17.42 | ACAAAAGGACAAAT |
| L1MB3_3end | KLF17 | 194 | 207 | + | 16.91 | ACCTCACACCCATT |
| L1MB3_3end | CG4360 | 38 | 50 | + | 16.75 | ACAACAAAAAAAC |
| L1MB3_3end | CTCF | 452 | 482 | + | 16.61 | CAGCATTATTCACAATAGCCAAAAGGTGGAA |
| L1MB3_3end | GAF1 | 638 | 652 | + | 16.41 | CACAAAAGGACAAAT |
| L1MB3_3end | ZNF211 | 525 | 534 | - | 16.39 | TATATACCAC |
| L1MB3_3end | MAZ | 738 | 745 | - | 16.08 | CCCCTCCC |
| L1MB3_3end | SP1 | 737 | 745 | + | 16.06 | GGGGAGGGG |
| L1MB3_3end | MGP | 641 | 653 | + | 15.92 | AAAAGGACAAATA |
| L1MB3_3end | SP4 | 737 | 745 | + | 15.85 | GGGGAGGGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
