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
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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 | MAFK | 52 | 61 | + | 17.75 | CTGACTCAGC |
| HERV-Fc1_LTR1 | SP2 | 154 | 162 | - | 17.56 | GGGGCGGGG |
| HERV-Fc1_LTR1 | SP4 | 154 | 162 | - | 17.54 | GGGGCGGGG |
| HERV-Fc1_LTR1 | KLF14 | 154 | 162 | - | 17.26 | GGGGCGGGG |
| HERV-Fc1_LTR1 | Klf15 | 148 | 169 | + | 17.14 | AACCGACCCCGCCCCTACCCCG |
| HERV-Fc1_LTR1 | Spps | 164 | 174 | + | 16.72 | ACCCCGCCCAC |
| HERV-Fc1_LTR1 | SP3 | 164 | 174 | + | 16.69 | ACCCCGCCCAC |
| HERV-Fc1_LTR1 | Klf15 | 165 | 186 | + | 16.46 | CCCCGCCCACTCCTCACCCAGC |
| HERV-Fc1_LTR1 | KLF15 | 154 | 161 | + | 16.27 | CCCCGCCC |
| HERV-Fc1_LTR1 | KLF15 | 165 | 172 | + | 16.27 | CCCCGCCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
