HERV-Fc1_LTR1
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000177 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Homininae |
| Length | 346 |
| Kimura value | 2.12 |
| Tau index | 1.0000 |
| Description | LTR1 (Long Terminal Repeat) for endgenous retrovirus HERV-Fc1 |
| Comment | - |
| Sequence |
TGATTGGACTCCGGTGAAGACTCCAAGATGGCGATCGCCACCTCGGATACCCTGACTCAGCATTTCCGGGTTCACCTTTCCTGTTCCCGCCACCCCGACTAACGCGCATGCCCACTAGGGCGTGTCACACTCAGAAGCGCGAAACTCAACCGACCCCGCCCCTACCCCGCCCACTCCTCACCCAGCATCCATAAAAGCGCGCTGCACCTTTGGCACAGCGCGACTTCCCTGGCCCTCCCCCTGCGGACCAGTGAACCTCGCCCGAGAGCTCAATAAAGAAGATTTTTGCCCTCTTTGTCTCGCCTCTCGGCCTTATTGATCCACGGTGCCCTTCCATTGCCTTTCA
|
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 |
|---|---|---|---|---|---|---|
| HERV-Fc1_LTR1 | SP8 | 165 | 175 | + | 16.20 | CCCCGCCCACT |
| HERV-Fc1_LTR1 | KLF14 | 165 | 173 | - | 16.15 | TGGGCGGGG |
| HERV-Fc1_LTR1 | SP9 | 165 | 174 | + | 15.96 | CCCCGCCCAC |
| HERV-Fc1_LTR1 | ELF4 | 61 | 72 | - | 15.84 | AACCCGGAAATG |
| HERV-Fc1_LTR1 | KLF12 | 165 | 173 | - | 15.81 | TGGGCGGGG |
| HERV-Fc1_LTR1 | KLF7 | 154 | 161 | - | 15.72 | GGGCGGGG |
| HERV-Fc1_LTR1 | KLF7 | 165 | 172 | - | 15.72 | GGGCGGGG |
| HERV-Fc1_LTR1 | Nfe2l2 | 52 | 62 | + | 15.71 | CTGACTCAGCA |
| HERV-Fc1_LTR1 | E2F8 | 84 | 92 | + | 15.69 | TTCCCGCCA |
| HERV-Fc1_LTR1 | MAF::NFE2 | 52 | 62 | + | 15.61 | CTGACTCAGCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
