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 | NAC011 | 65 | 85 | - | 19.00 | TTTGCTTCTAAGAGAAGTTAC |
| LTR10C | NAC075 | 65 | 84 | + | 17.76 | GTAACTTCTCTTAGAAGCAA |
| LTR10C | Sox102F | 451 | 462 | + | 17.33 | TTTGTTCGGTGT |
| LTR10C | NAC031 | 66 | 84 | - | 17.32 | TTGCTTCTAAGAGAAGTTA |
| LTR10C | Sox14 | 447 | 457 | + | 16.70 | CTCCTTTGTTC |
| LTR10C | NAC010 | 64 | 84 | - | 16.68 | TTGCTTCTAAGAGAAGTTACT |
| LTR10C | NAC038 | 66 | 84 | - | 16.45 | TTGCTTCTAAGAGAAGTTA |
| LTR10C | NAC005 | 66 | 84 | - | 16.16 | TTGCTTCTAAGAGAAGTTA |
| LTR10C | NAC005 | 66 | 84 | + | 15.62 | TAACTTCTCTTAGAAGCAA |
| LTR10C | D | 300 | 310 | + | 15.14 | TCCTTTGTTCT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
