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 | ZHD9 | 49 | 63 | - | 14.58 | ATTTATTCCTAATTA |
| LTR10C | Sox11 | 302 | 309 | - | 14.51 | GAACAAAG |
| LTR10C | Sox11 | 450 | 457 | - | 14.51 | GAACAAAG |
| LTR10C | RVE7L | 115 | 123 | + | 14.41 | TAAATATCT |
| LTR10C | RVE5 | 115 | 123 | - | 14.35 | AGATATTTA |
| LTR10C | RVE6 | 115 | 123 | - | 14.32 | AGATATTTA |
| LTR10C | RVE8 | 115 | 123 | - | 14.29 | AGATATTTA |
| LTR10C | Sox6 | 301 | 310 | + | 14.21 | CCTTTGTTCT |
| LTR10C | PK02532.1 | 116 | 123 | + | 14.19 | AAATATCT |
| LTR10C | Spi1 | 288 | 300 | - | 14.19 | AAGGAGGAAGTAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
