LTR10C
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000394 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Catarrhini |
| Length | 591 |
| Kimura value | 4.93 |
| Tau index | 0.9412 |
| Description | LTR10C (Long Terminal Repeat) for HERVI endogenous retrovirus |
| Comment | LTR10C is a long terminal repeat that appears to be associated with HERVI. |
| Sequence |
TGTAAAAAGTAAAGTAGAGGTTCCTCTTCAAAGACTTTCCTCCCCGTCTAATTAGGAATAAATAGTAACTTCTCTTAGAAGCAAAATTTATTCAAAGACCTGTGCTAACATTCTTAAATATCTGCTAGCCGTAATAAAGAAATCAATGTACTTTATGTTCTTAGCTCCCACAATTTAGCCTAAATATTTGCCCTGGCATGCTTATACTGGTCCAAGCAAGCATTAGGTCATAGCCTGTTCCTCTTCCTTATTTGAAGGTGTTTTTACCTTTCTCAGCATTCCACAAGTTACTTCCTCCTTCCTTTGTTCTCCTCTGCCTTTGCCTCTTTTAAAAAGTTCTAAGTTGCTAGCCAATCGGGACAAATACAGAATGTGAGGTCCCGTTCCAGCCAATGGAAACCGGACACAGCAGTAGGGTGGACGCGTCAGGTTATAAATGACCCTGTCTCCTTTGTTCGGTGTACTCTCGTGGCAAAACTGCTGGCGAGTGTACCCTTTCTGCAGAAAGTANAAAAATGGCCTTGCTGAGGAAATTAAATTTATGTTCAAGTGCTATTTCTTTACGGCACCGGGGAACAAGCATTTCAAACA
|
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 |
|---|---|---|---|---|---|---|
| LTR10C | Nfatc2 | 392 | 399 | + | 14.03 | AATGGAAA |
| LTR10C | NAC058 | 66 | 84 | - | 14.03 | TTGCTTCTAAGAGAAGTTA |
| LTR10C | RVE4 | 115 | 123 | - | 14.03 | AGATATTTA |
| LTR10C | SPIB | 288 | 300 | + | 14.00 | TTACTTCCTCCTT |
| LTR10C | NAC010 | 66 | 86 | + | 14.00 | TAACTTCTCTTAGAAGCAAAA |
| LTR10C | ZNF263 | 38 | 44 | - | 13.83 | GGGAGGA |
| LTR10C | ARF39 | 571 | 581 | + | 13.75 | GGGGAACAAGC |
| LTR10C | DOF1.7 | 4 | 14 | + | 13.73 | AAAAAGTAAAG |
| LTR10C | DOF4.7 | 4 | 12 | - | 13.72 | TTACTTTTT |
| LTR10C | tin | 545 | 553 | + | 13.70 | TTCAAGTGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
